2011-05-20 06:16:51,581 - INFO - Generating QC metrics for BAM File ['WTCHG_12342.bam']
2011-05-20 06:16:51,581 - INFO - Output will go to WTCHG_12342.qc.txt.tmp
2011-05-20 06:16:51,581 - INFO - Reading GC Map from file /data/Genomes/gcMap/Mouse37.gcMap.gz
2011-05-20 06:19:51,675 - INFO - Finished reading GC Map
2011-05-20 06:19:51,675 - INFO - Reading CDS from exon definition file /data/Genomes/annotation/Mouse37.refGene.txt.gz
2011-05-20 06:19:54,599 - INFO - Read 382138 exons (33804740 nucleotides) for 32 chromosomes
2011-05-20 06:19:54,600 - INFO - Computing coverage cut-off
2011-05-20 06:19:54,600 - INFO - Retrieving BAM file coverage info from samtools pileup
2011-05-20 06:19:58,992 - INFO - Processed 1000000 pile-up sites
2011-05-20 06:20:03,091 - INFO - Processed 2000000 pile-up sites
2011-05-20 06:20:08,952 - INFO - Processed 3000000 pile-up sites
2011-05-20 06:20:13,540 - INFO - Processed 4000000 pile-up sites
2011-05-20 06:20:17,971 - INFO - Processed 5000000 pile-up sites
2011-05-20 06:20:21,785 - INFO - Processed 6000000 pile-up sites
2011-05-20 06:20:26,252 - INFO - Processed 7000000 pile-up sites
2011-05-20 06:20:31,066 - INFO - Processed 8000000 pile-up sites
2011-05-20 06:20:33,791 - INFO - Processed 9000000 pile-up sites
2011-05-20 06:20:36,126 - INFO - Processed 10000000 pile-up sites
2011-05-20 06:20:38,482 - INFO - Processed 11000000 pile-up sites
2011-05-20 06:20:42,172 - INFO - Processed 12000000 pile-up sites
2011-05-20 06:20:45,852 - INFO - Processed 13000000 pile-up sites
2011-05-20 06:20:49,634 - INFO - Processed 14000000 pile-up sites
2011-05-20 06:20:53,186 - INFO - Processed 15000000 pile-up sites
2011-05-20 06:20:57,116 - INFO - Processed 16000000 pile-up sites
2011-05-20 06:21:00,868 - INFO - Processed 17000000 pile-up sites
2011-05-20 06:21:04,729 - INFO - Processed 18000000 pile-up sites
2011-05-20 06:21:10,872 - INFO - Processed 19000000 pile-up sites
2011-05-20 06:21:14,609 - INFO - Processed 20000000 pile-up sites
2011-05-20 06:21:19,072 - INFO - Processed 21000000 pile-up sites
2011-05-20 06:21:22,882 - INFO - Processed 22000000 pile-up sites
2011-05-20 06:21:26,997 - INFO - Processed 23000000 pile-up sites
2011-05-20 06:21:30,624 - INFO - Processed 24000000 pile-up sites
2011-05-20 06:21:34,332 - INFO - Processed 25000000 pile-up sites
2011-05-20 06:21:38,505 - INFO - Processed 26000000 pile-up sites
2011-05-20 06:21:42,304 - INFO - Processed 27000000 pile-up sites
2011-05-20 06:21:47,741 - INFO - Processed 28000000 pile-up sites
2011-05-20 06:21:51,595 - INFO - Processed 29000000 pile-up sites
2011-05-20 06:21:56,229 - INFO - Processed 30000000 pile-up sites
2011-05-20 06:22:00,651 - INFO - Processed 31000000 pile-up sites
2011-05-20 06:22:04,934 - INFO - Processed 32000000 pile-up sites
2011-05-20 06:22:08,716 - INFO - Processed 33000000 pile-up sites
2011-05-20 06:22:09,131 - INFO - Finished processing pile-up on 33121168 sites (200000005 nucleotides)
2011-05-20 06:22:09,131 - INFO - Coverage cut-off value is 26
2011-05-20 06:22:09,131 - INFO - Loading data into QC data manager
2011-05-20 06:22:09,298 - WARNING - Found RG tag 'SM' (value: 313) duplicated in CO field (value: 4630/10) -- ignoring CO value
2011-05-20 06:22:09,298 - WARNING - Found RG tag 'ID' (value: WTCHG_12342) duplicated in CO field (value: 4630/10) -- ignoring CO value
2011-05-20 06:22:09,298 - WARNING - Found RG tag 'SM' (value: 313) duplicated in CO field (value: 4630/10) -- ignoring CO value
2011-05-20 06:22:09,298 - WARNING - Found RG tag 'ID' (value: WTCHG_12342) duplicated in CO field (value: 4630/10) -- ignoring CO value
2011-05-20 06:22:09,298 - WARNING - Found RG tag 'SM' (value: 313) duplicated in CO field (value: 4630/10) -- ignoring CO value
2011-05-20 06:22:09,298 - WARNING - Found RG tag 'ID' (value: WTCHG_12342) duplicated in CO field (value: 4630/10) -- ignoring CO value
2011-05-20 06:22:09,298 - WARNING - Found RG tag 'SM' (value: 313) duplicated in CO field (value: 4630/10) -- ignoring CO value
2011-05-20 06:22:09,298 - WARNING - Found RG tag 'ID' (value: WTCHG_12342) duplicated in CO field (value: 4630/10) -- ignoring CO value
2011-05-20 06:22:09,352 - WARNING - Found RG tag 'SM' (value: 313) duplicated in CO field (value: 4630/10) -- ignoring CO value
2011-05-20 06:22:09,352 - WARNING - Found RG tag 'ID' (value: WTCHG_12342) duplicated in CO field (value: 4630/10) -- ignoring CO value
2011-05-20 06:22:09,352 - WARNING - Found RG tag 'SM' (value: 313) duplicated in CO field (value: 4630/10) -- ignoring CO value
2011-05-20 06:22:09,352 - WARNING - Found RG tag 'ID' (value: WTCHG_12342) duplicated in CO field (value: 4630/10) -- ignoring CO value
2011-05-20 06:22:09,352 - WARNING - Found RG tag 'SM' (value: 313) duplicated in CO field (value: 4630/10) -- ignoring CO value
2011-05-20 06:22:09,352 - WARNING - Found RG tag 'ID' (value: WTCHG_12342) duplicated in CO field (value: 4630/10) -- ignoring CO value
2011-05-20 06:22:09,353 - WARNING - Found RG tag 'SM' (value: 313) duplicated in CO field (value: 4630/10) -- ignoring CO value
2011-05-20 06:22:09,353 - WARNING - Found RG tag 'ID' (value: WTCHG_12342) duplicated in CO field (value: 4630/10) -- ignoring CO value
2011-05-20 06:22:09,362 - INFO - Reading data from BAM file WTCHG_12342.bam. All reads in file will be read
2011-05-20 06:22:09,404 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:2990063-23010063
2011-05-20 06:22:19,536 - INFO - Processed 100000 reads so far
2011-05-20 06:22:30,196 - INFO - Processed 200000 reads so far
2011-05-20 06:22:40,037 - INFO - Processed 300000 reads so far
2011-05-20 06:22:49,058 - INFO - Processed 400000 reads so far
2011-05-20 06:22:57,999 - INFO - Processed 500000 reads so far
2011-05-20 06:23:04,633 - INFO - Processed 600000 reads so far
2011-05-20 06:23:13,119 - INFO - Processed 700000 reads so far
2011-05-20 06:23:21,892 - INFO - Processed 800000 reads so far
2011-05-20 06:23:31,298 - INFO - Processed 900000 reads so far
2011-05-20 06:23:38,641 - INFO - Processed 1000000 reads so far
2011-05-20 06:23:45,448 - INFO - Processed 1100000 reads so far
2011-05-20 06:23:52,001 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:22990086-43010086
2011-05-20 06:23:52,202 - INFO - Processed 1200000 reads so far
2011-05-20 06:24:00,589 - INFO - Processed 1300000 reads so far
2011-05-20 06:24:11,700 - INFO - Processed 1400000 reads so far
2011-05-20 06:24:22,558 - INFO - Processed 1500000 reads so far
2011-05-20 06:24:32,211 - INFO - Processed 1600000 reads so far
2011-05-20 06:24:42,301 - INFO - Processed 1700000 reads so far
2011-05-20 06:24:53,496 - INFO - Processed 1800000 reads so far
2011-05-20 06:25:04,667 - INFO - Processed 1900000 reads so far
2011-05-20 06:25:14,800 - INFO - Processed 2000000 reads so far
2011-05-20 06:25:27,768 - INFO - Processed 2100000 reads so far
2011-05-20 06:25:39,166 - INFO - Processed 2200000 reads so far
2011-05-20 06:25:51,291 - INFO - Processed 2300000 reads so far
2011-05-20 06:25:57,526 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:42990130-63010130
2011-05-20 06:26:03,043 - INFO - Processed 2400000 reads so far
2011-05-20 06:26:15,024 - INFO - Processed 2500000 reads so far
2011-05-20 06:26:27,417 - INFO - Processed 2600000 reads so far
2011-05-20 06:26:38,618 - INFO - Processed 2700000 reads so far
2011-05-20 06:26:47,312 - INFO - Processed 2800000 reads so far
2011-05-20 06:26:58,962 - INFO - Processed 2900000 reads so far
2011-05-20 06:27:09,771 - INFO - Processed 3000000 reads so far
2011-05-20 06:27:19,986 - INFO - Processed 3100000 reads so far
2011-05-20 06:27:31,904 - INFO - Processed 3200000 reads so far
2011-05-20 06:27:40,784 - INFO - Processed 3300000 reads so far
2011-05-20 06:27:49,804 - INFO - Processed 3400000 reads so far
2011-05-20 06:27:58,417 - INFO - Processed 3500000 reads so far
2011-05-20 06:27:58,504 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:62990161-83010161
2011-05-20 06:28:08,407 - INFO - Processed 3600000 reads so far
2011-05-20 06:28:16,561 - INFO - Processed 3700000 reads so far
2011-05-20 06:28:26,330 - INFO - Processed 3800000 reads so far
2011-05-20 06:28:35,244 - INFO - Processed 3900000 reads so far
2011-05-20 06:28:44,341 - INFO - Processed 4000000 reads so far
2011-05-20 06:28:54,890 - INFO - Processed 4100000 reads so far
2011-05-20 06:29:03,484 - INFO - Processed 4200000 reads so far
2011-05-20 06:29:12,608 - INFO - Processed 4300000 reads so far
2011-05-20 06:29:21,217 - INFO - Processed 4400000 reads so far
2011-05-20 06:29:29,645 - INFO - Processed 4500000 reads so far
2011-05-20 06:29:37,970 - INFO - Processed 4600000 reads so far
2011-05-20 06:29:43,592 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:82990171-103010171
2011-05-20 06:29:46,592 - INFO - Processed 4700000 reads so far
2011-05-20 06:29:55,408 - INFO - Processed 4800000 reads so far
2011-05-20 06:30:04,574 - INFO - Processed 4900000 reads so far
2011-05-20 06:30:14,312 - INFO - Processed 5000000 reads so far
2011-05-20 06:30:22,546 - INFO - Processed 5100000 reads so far
2011-05-20 06:30:31,092 - INFO - Processed 5200000 reads so far
2011-05-20 06:30:39,916 - INFO - Processed 5300000 reads so far
2011-05-20 06:30:49,507 - INFO - Processed 5400000 reads so far
2011-05-20 06:30:57,626 - INFO - Processed 5500000 reads so far
2011-05-20 06:31:05,890 - INFO - Processed 5600000 reads so far
2011-05-20 06:31:14,263 - INFO - Processed 5700000 reads so far
2011-05-20 06:31:24,648 - INFO - Processed 5800000 reads so far
2011-05-20 06:31:29,361 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:102990182-123010182
2011-05-20 06:31:35,107 - INFO - Processed 5900000 reads so far
2011-05-20 06:31:46,466 - INFO - Processed 6000000 reads so far
2011-05-20 06:31:56,536 - INFO - Processed 6100000 reads so far
2011-05-20 06:32:07,898 - INFO - Processed 6200000 reads so far
2011-05-20 06:32:18,569 - INFO - Processed 6300000 reads so far
2011-05-20 06:32:31,278 - INFO - Processed 6400000 reads so far
2011-05-20 06:32:41,993 - INFO - Processed 6500000 reads so far
2011-05-20 06:32:52,773 - INFO - Processed 6600000 reads so far
2011-05-20 06:33:03,570 - INFO - Processed 6700000 reads so far
2011-05-20 06:33:14,345 - INFO - Processed 6800000 reads so far
2011-05-20 06:33:25,097 - INFO - Processed 6900000 reads so far
2011-05-20 06:33:34,858 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:122990191-143010191
2011-05-20 06:33:35,815 - INFO - Processed 7000000 reads so far
2011-05-20 06:33:46,727 - INFO - Processed 7100000 reads so far
2011-05-20 06:33:57,955 - INFO - Processed 7200000 reads so far
2011-05-20 06:34:09,255 - INFO - Processed 7300000 reads so far
2011-05-20 06:34:19,459 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:2990003-23010003
2011-05-20 06:34:19,930 - INFO - Processed 7400000 reads so far
2011-05-20 06:34:29,507 - INFO - Processed 7500000 reads so far
2011-05-20 06:34:39,706 - INFO - Processed 7600000 reads so far
2011-05-20 06:34:50,863 - INFO - Processed 7700000 reads so far
2011-05-20 06:35:02,063 - INFO - Processed 7800000 reads so far
2011-05-20 06:35:13,321 - INFO - Processed 7900000 reads so far
2011-05-20 06:35:23,877 - INFO - Processed 8000000 reads so far
2011-05-20 06:35:34,739 - INFO - Processed 8100000 reads so far
2011-05-20 06:35:48,057 - INFO - Processed 8200000 reads so far
2011-05-20 06:35:58,694 - INFO - Processed 8300000 reads so far
2011-05-20 06:36:08,316 - INFO - Processed 8400000 reads so far
2011-05-20 06:36:16,995 - INFO - Processed 8500000 reads so far
2011-05-20 06:36:26,749 - INFO - Processed 8600000 reads so far
2011-05-20 06:36:36,135 - INFO - Processed 8700000 reads so far
2011-05-20 06:36:40,814 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:22990007-43010007
2011-05-20 06:36:45,258 - INFO - Processed 8800000 reads so far
2011-05-20 06:36:55,823 - INFO - Processed 8900000 reads so far
2011-05-20 06:37:04,564 - INFO - Processed 9000000 reads so far
2011-05-20 06:37:13,985 - INFO - Processed 9100000 reads so far
2011-05-20 06:37:23,247 - INFO - Processed 9200000 reads so far
2011-05-20 06:37:35,839 - INFO - Processed 9300000 reads so far
2011-05-20 06:37:45,550 - INFO - Processed 9400000 reads so far
2011-05-20 06:37:55,917 - INFO - Processed 9500000 reads so far
2011-05-20 06:38:05,362 - INFO - Processed 9600000 reads so far
2011-05-20 06:38:13,571 - INFO - Processed 9700000 reads so far
2011-05-20 06:38:21,654 - INFO - Processed 9800000 reads so far
2011-05-20 06:38:30,631 - INFO - Processed 9900000 reads so far
2011-05-20 06:38:31,476 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:42990018-63010018
2011-05-20 06:38:39,302 - INFO - Processed 10000000 reads so far
2011-05-20 06:38:49,647 - INFO - Processed 10100000 reads so far
2011-05-20 06:38:59,077 - INFO - Processed 10200000 reads so far
2011-05-20 06:39:08,964 - INFO - Processed 10300000 reads so far
2011-05-20 06:39:18,411 - INFO - Processed 10400000 reads so far
2011-05-20 06:39:28,414 - INFO - Processed 10500000 reads so far
2011-05-20 06:39:37,836 - INFO - Processed 10600000 reads so far
2011-05-20 06:39:47,557 - INFO - Processed 10700000 reads so far
2011-05-20 06:39:56,785 - INFO - Processed 10800000 reads so far
2011-05-20 06:40:05,806 - INFO - Processed 10900000 reads so far
2011-05-20 06:40:17,216 - INFO - Processed 11000000 reads so far
2011-05-20 06:40:28,087 - INFO - Processed 11100000 reads so far
2011-05-20 06:40:30,294 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:62990025-83010025
2011-05-20 06:40:36,582 - INFO - Processed 11200000 reads so far
2011-05-20 06:40:44,425 - INFO - Processed 11300000 reads so far
2011-05-20 06:40:57,448 - INFO - Processed 11400000 reads so far
2011-05-20 06:41:06,766 - INFO - Processed 11500000 reads so far
2011-05-20 06:41:15,930 - INFO - Processed 11600000 reads so far
2011-05-20 06:41:24,646 - INFO - Processed 11700000 reads so far
2011-05-20 06:41:34,444 - INFO - Processed 11800000 reads so far
2011-05-20 06:41:42,649 - INFO - Processed 11900000 reads so far
2011-05-20 06:41:51,144 - INFO - Processed 12000000 reads so far
2011-05-20 06:41:59,311 - INFO - Processed 12100000 reads so far
2011-05-20 06:42:07,738 - INFO - Processed 12200000 reads so far
2011-05-20 06:42:16,674 - INFO - Processed 12300000 reads so far
2011-05-20 06:42:18,956 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:82990033-103010033
2011-05-20 06:42:25,266 - INFO - Processed 12400000 reads so far
2011-05-20 06:42:34,394 - INFO - Processed 12500000 reads so far
2011-05-20 06:42:44,440 - INFO - Processed 12600000 reads so far
2011-05-20 06:42:53,774 - INFO - Processed 12700000 reads so far
2011-05-20 06:43:02,185 - INFO - Processed 12800000 reads so far
2011-05-20 06:43:11,763 - INFO - Processed 12900000 reads so far
2011-05-20 06:43:21,421 - INFO - Processed 13000000 reads so far
2011-05-20 06:43:31,309 - INFO - Processed 13100000 reads so far
2011-05-20 06:43:43,130 - INFO - Processed 13200000 reads so far
2011-05-20 06:43:53,836 - INFO - Processed 13300000 reads so far
2011-05-20 06:44:06,107 - INFO - Processed 13400000 reads so far
2011-05-20 06:44:12,252 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:102990043-123010043
2011-05-20 06:44:15,994 - INFO - Processed 13500000 reads so far
2011-05-20 06:44:27,211 - INFO - Processed 13600000 reads so far
2011-05-20 06:44:40,945 - INFO - Processed 13700000 reads so far
2011-05-20 06:44:51,674 - INFO - Processed 13800000 reads so far
2011-05-20 06:45:02,241 - INFO - Processed 13900000 reads so far
2011-05-20 06:45:12,673 - INFO - Processed 14000000 reads so far
2011-05-20 06:45:25,012 - INFO - Processed 14100000 reads so far
2011-05-20 06:45:35,564 - INFO - Processed 14200000 reads so far
2011-05-20 06:45:48,176 - INFO - Processed 14300000 reads so far
2011-05-20 06:45:58,903 - INFO - Processed 14400000 reads so far
2011-05-20 06:46:12,049 - INFO - Processed 14500000 reads so far
2011-05-20 06:46:20,097 - INFO - Processed 14600000 reads so far
2011-05-20 06:46:20,098 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:2990009-23010009
2011-05-20 06:46:29,401 - INFO - Processed 14700000 reads so far
2011-05-20 06:46:40,908 - INFO - Processed 14800000 reads so far
2011-05-20 06:46:49,244 - INFO - Processed 14900000 reads so far
2011-05-20 06:46:56,422 - INFO - Processed 15000000 reads so far
2011-05-20 06:47:04,247 - INFO - Processed 15100000 reads so far
2011-05-20 06:47:12,166 - INFO - Processed 15200000 reads so far
2011-05-20 06:47:19,582 - INFO - Processed 15300000 reads so far
2011-05-20 06:47:26,369 - INFO - Processed 15400000 reads so far
2011-05-20 06:47:35,427 - INFO - Processed 15500000 reads so far
2011-05-20 06:47:44,158 - INFO - Processed 15600000 reads so far
2011-05-20 06:47:54,141 - INFO - Processed 15700000 reads so far
2011-05-20 06:48:02,701 - INFO - Processed 15800000 reads so far
2011-05-20 06:48:09,112 - INFO - Processed 15900000 reads so far
2011-05-20 06:48:17,550 - INFO - Processed 16000000 reads so far
2011-05-20 06:48:25,906 - INFO - Processed 16100000 reads so far
2011-05-20 06:48:26,341 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:22990074-43010074
2011-05-20 06:48:38,075 - INFO - Processed 16200000 reads so far
2011-05-20 06:48:45,530 - INFO - Processed 16300000 reads so far
2011-05-20 06:48:53,063 - INFO - Processed 16400000 reads so far
2011-05-20 06:49:01,561 - INFO - Processed 16500000 reads so far
2011-05-20 06:49:09,174 - INFO - Processed 16600000 reads so far
2011-05-20 06:49:17,335 - INFO - Processed 16700000 reads so far
2011-05-20 06:49:25,735 - INFO - Processed 16800000 reads so far
2011-05-20 06:49:32,628 - INFO - Processed 16900000 reads so far
2011-05-20 06:49:42,080 - INFO - Processed 17000000 reads so far
2011-05-20 06:49:48,748 - INFO - Processed 17100000 reads so far
2011-05-20 06:49:56,456 - INFO - Processed 17200000 reads so far
2011-05-20 06:49:57,856 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:42990081-63010081
2011-05-20 06:50:03,697 - INFO - Processed 17300000 reads so far
2011-05-20 06:50:12,256 - INFO - Processed 17400000 reads so far
2011-05-20 06:50:21,116 - INFO - Processed 17500000 reads so far
2011-05-20 06:50:28,688 - INFO - Processed 17600000 reads so far
2011-05-20 06:50:37,551 - INFO - Processed 17700000 reads so far
2011-05-20 06:50:45,762 - INFO - Processed 17800000 reads so far
2011-05-20 06:50:55,997 - INFO - Processed 17900000 reads so far
2011-05-20 06:51:03,605 - INFO - Processed 18000000 reads so far
2011-05-20 06:51:10,806 - INFO - Processed 18100000 reads so far
2011-05-20 06:51:17,795 - INFO - Processed 18200000 reads so far
2011-05-20 06:51:26,789 - INFO - Processed 18300000 reads so far
2011-05-20 06:51:29,535 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:62990084-83010084
2011-05-20 06:51:33,937 - INFO - Processed 18400000 reads so far
2011-05-20 06:51:42,088 - INFO - Processed 18500000 reads so far
2011-05-20 06:51:48,931 - INFO - Processed 18600000 reads so far
2011-05-20 06:51:55,937 - INFO - Processed 18700000 reads so far
2011-05-20 06:52:03,893 - INFO - Processed 18800000 reads so far
2011-05-20 06:52:11,118 - INFO - Processed 18900000 reads so far
2011-05-20 06:52:21,005 - INFO - Processed 19000000 reads so far
2011-05-20 06:52:27,971 - INFO - Processed 19100000 reads so far
2011-05-20 06:52:34,924 - INFO - Processed 19200000 reads so far
2011-05-20 06:52:43,552 - INFO - Processed 19300000 reads so far
2011-05-20 06:52:52,156 - INFO - Processed 19400000 reads so far
2011-05-20 06:53:01,684 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:82990101-103010101
2011-05-20 06:53:02,245 - INFO - Processed 19500000 reads so far
2011-05-20 06:53:12,078 - INFO - Processed 19600000 reads so far
2011-05-20 06:53:20,519 - INFO - Processed 19700000 reads so far
2011-05-20 06:53:31,103 - INFO - Processed 19800000 reads so far
2011-05-20 06:53:42,193 - INFO - Processed 19900000 reads so far
2011-05-20 06:53:50,585 - INFO - Processed 20000000 reads so far
2011-05-20 06:54:02,552 - INFO - Processed 20100000 reads so far
2011-05-20 06:54:11,128 - INFO - Processed 20200000 reads so far
2011-05-20 06:54:20,125 - INFO - Processed 20300000 reads so far
2011-05-20 06:54:28,342 - INFO - Processed 20400000 reads so far
2011-05-20 06:54:37,544 - INFO - Processed 20500000 reads so far
2011-05-20 06:54:45,930 - INFO - Processed 20600000 reads so far
2011-05-20 06:54:47,823 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:102990105-123010105
2011-05-20 06:54:55,695 - INFO - Processed 20700000 reads so far
2011-05-20 06:55:04,835 - INFO - Processed 20800000 reads so far
2011-05-20 06:55:14,060 - INFO - Processed 20900000 reads so far
2011-05-20 06:55:23,263 - INFO - Processed 21000000 reads so far
2011-05-20 06:55:31,781 - INFO - Processed 21100000 reads so far
2011-05-20 06:55:40,800 - INFO - Processed 21200000 reads so far
2011-05-20 06:55:49,905 - INFO - Processed 21300000 reads so far
2011-05-20 06:55:58,238 - INFO - Processed 21400000 reads so far
2011-05-20 06:56:07,868 - INFO - Processed 21500000 reads so far
2011-05-20 06:56:16,708 - INFO - Processed 21600000 reads so far
2011-05-20 06:56:26,592 - INFO - Processed 21700000 reads so far
2011-05-20 06:56:31,441 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:2990053-23010053
2011-05-20 06:56:36,558 - INFO - Processed 21800000 reads so far
2011-05-20 06:56:46,386 - INFO - Processed 21900000 reads so far
2011-05-20 06:56:56,648 - INFO - Processed 22000000 reads so far
2011-05-20 06:57:05,820 - INFO - Processed 22100000 reads so far
2011-05-20 06:57:14,045 - INFO - Processed 22200000 reads so far
2011-05-20 06:57:22,868 - INFO - Processed 22300000 reads so far
2011-05-20 06:57:33,700 - INFO - Processed 22400000 reads so far
2011-05-20 06:57:43,515 - INFO - Processed 22500000 reads so far
2011-05-20 06:57:55,505 - INFO - Processed 22600000 reads so far
2011-05-20 06:58:04,159 - INFO - Processed 22700000 reads so far
2011-05-20 06:58:16,785 - INFO - Processed 22800000 reads so far
2011-05-20 06:58:23,918 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:22990077-43010077
2011-05-20 06:58:25,662 - INFO - Processed 22900000 reads so far
2011-05-20 06:58:34,324 - INFO - Processed 23000000 reads so far
2011-05-20 06:58:44,645 - INFO - Processed 23100000 reads so far
2011-05-20 06:58:54,943 - INFO - Processed 23200000 reads so far
2011-05-20 06:59:05,112 - INFO - Processed 23300000 reads so far
2011-05-20 06:59:16,133 - INFO - Processed 23400000 reads so far
2011-05-20 06:59:24,638 - INFO - Processed 23500000 reads so far
2011-05-20 06:59:37,042 - INFO - Processed 23600000 reads so far
2011-05-20 06:59:48,615 - INFO - Processed 23700000 reads so far
2011-05-20 06:59:59,066 - INFO - Processed 23800000 reads so far
2011-05-20 07:00:08,620 - INFO - Processed 23900000 reads so far
2011-05-20 07:00:17,371 - INFO - Processed 24000000 reads so far
2011-05-20 07:00:25,935 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:42990093-63010093
2011-05-20 07:00:28,325 - INFO - Processed 24100000 reads so far
2011-05-20 07:00:39,329 - INFO - Processed 24200000 reads so far
2011-05-20 07:00:50,253 - INFO - Processed 24300000 reads so far
2011-05-20 07:01:01,661 - INFO - Processed 24400000 reads so far
2011-05-20 07:01:11,863 - INFO - Processed 24500000 reads so far
2011-05-20 07:01:20,786 - INFO - Processed 24600000 reads so far
2011-05-20 07:01:30,901 - INFO - Processed 24700000 reads so far
2011-05-20 07:01:40,954 - INFO - Processed 24800000 reads so far
2011-05-20 07:01:49,374 - INFO - Processed 24900000 reads so far
2011-05-20 07:02:00,266 - INFO - Processed 25000000 reads so far
2011-05-20 07:02:09,003 - INFO - Processed 25100000 reads so far
2011-05-20 07:02:18,334 - INFO - Processed 25200000 reads so far
2011-05-20 07:02:25,870 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:62990096-83010096
2011-05-20 07:02:26,704 - INFO - Processed 25300000 reads so far
2011-05-20 07:02:35,912 - INFO - Processed 25400000 reads so far
2011-05-20 07:02:43,941 - INFO - Processed 25500000 reads so far
2011-05-20 07:02:52,290 - INFO - Processed 25600000 reads so far
2011-05-20 07:03:02,737 - INFO - Processed 25700000 reads so far
2011-05-20 07:03:11,081 - INFO - Processed 25800000 reads so far
2011-05-20 07:03:20,938 - INFO - Processed 25900000 reads so far
2011-05-20 07:03:30,223 - INFO - Processed 26000000 reads so far
2011-05-20 07:03:38,243 - INFO - Processed 26100000 reads so far
2011-05-20 07:03:46,833 - INFO - Processed 26200000 reads so far
2011-05-20 07:03:55,080 - INFO - Processed 26300000 reads so far
2011-05-20 07:04:03,868 - INFO - Processed 26400000 reads so far
2011-05-20 07:04:10,003 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:82990129-103010129
2011-05-20 07:04:12,938 - INFO - Processed 26500000 reads so far
2011-05-20 07:04:22,437 - INFO - Processed 26600000 reads so far
2011-05-20 07:04:30,741 - INFO - Processed 26700000 reads so far
2011-05-20 07:04:40,321 - INFO - Processed 26800000 reads so far
2011-05-20 07:04:48,913 - INFO - Processed 26900000 reads so far
2011-05-20 07:04:57,063 - INFO - Processed 27000000 reads so far
2011-05-20 07:05:04,932 - INFO - Processed 27100000 reads so far
2011-05-20 07:05:13,945 - INFO - Processed 27200000 reads so far
2011-05-20 07:05:22,341 - INFO - Processed 27300000 reads so far
2011-05-20 07:05:30,605 - INFO - Processed 27400000 reads so far
2011-05-20 07:05:38,635 - INFO - Processed 27500000 reads so far
2011-05-20 07:05:45,800 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:102990176-123010176
2011-05-20 07:05:47,438 - INFO - Processed 27600000 reads so far
2011-05-20 07:05:55,490 - INFO - Processed 27700000 reads so far
2011-05-20 07:06:03,607 - INFO - Processed 27800000 reads so far
2011-05-20 07:06:12,973 - INFO - Processed 27900000 reads so far
2011-05-20 07:06:21,755 - INFO - Processed 28000000 reads so far
2011-05-20 07:06:30,577 - INFO - Processed 28100000 reads so far
2011-05-20 07:06:39,931 - INFO - Processed 28200000 reads so far
2011-05-20 07:06:50,119 - INFO - Processed 28300000 reads so far
2011-05-20 07:06:58,614 - INFO - Processed 28400000 reads so far
2011-05-20 07:07:07,425 - INFO - Processed 28500000 reads so far
2011-05-20 07:07:15,646 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13_random:0-20010000
2011-05-20 07:07:16,602 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:2990019-23010019
2011-05-20 07:07:17,014 - INFO - Processed 28600000 reads so far
2011-05-20 07:07:27,168 - INFO - Processed 28700000 reads so far
2011-05-20 07:07:37,513 - INFO - Processed 28800000 reads so far
2011-05-20 07:07:45,909 - INFO - Processed 28900000 reads so far
2011-05-20 07:07:56,577 - INFO - Processed 29000000 reads so far
2011-05-20 07:08:06,715 - INFO - Processed 29100000 reads so far
2011-05-20 07:08:16,589 - INFO - Processed 29200000 reads so far
2011-05-20 07:08:26,876 - INFO - Processed 29300000 reads so far
2011-05-20 07:08:36,175 - INFO - Processed 29400000 reads so far
2011-05-20 07:08:44,129 - INFO - Processed 29500000 reads so far
2011-05-20 07:08:53,344 - INFO - Processed 29600000 reads so far
2011-05-20 07:09:02,613 - INFO - Processed 29700000 reads so far
2011-05-20 07:09:02,944 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:22990037-43010037
2011-05-20 07:09:11,047 - INFO - Processed 29800000 reads so far
2011-05-20 07:09:20,943 - INFO - Processed 29900000 reads so far
2011-05-20 07:09:31,582 - INFO - Processed 30000000 reads so far
2011-05-20 07:09:40,820 - INFO - Processed 30100000 reads so far
2011-05-20 07:09:49,834 - INFO - Processed 30200000 reads so far
2011-05-20 07:10:04,970 - INFO - Processed 30300000 reads so far
2011-05-20 07:10:22,487 - INFO - Processed 30400000 reads so far
2011-05-20 07:10:33,609 - INFO - Processed 30500000 reads so far
2011-05-20 07:10:52,006 - INFO - Processed 30600000 reads so far
2011-05-20 07:11:12,065 - INFO - Processed 30700000 reads so far
2011-05-20 07:11:22,743 - INFO - Processed 30800000 reads so far
2011-05-20 07:11:28,503 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:42990088-63010088
2011-05-20 07:11:34,343 - INFO - Processed 30900000 reads so far
2011-05-20 07:11:49,490 - INFO - Processed 31000000 reads so far
2011-05-20 07:12:00,509 - INFO - Processed 31100000 reads so far
2011-05-20 07:12:13,518 - INFO - Processed 31200000 reads so far
2011-05-20 07:12:27,003 - INFO - Processed 31300000 reads so far
2011-05-20 07:12:46,422 - INFO - Processed 31400000 reads so far
2011-05-20 07:12:56,275 - INFO - Processed 31500000 reads so far
2011-05-20 07:13:06,470 - INFO - Processed 31600000 reads so far
2011-05-20 07:13:20,655 - INFO - Processed 31700000 reads so far
2011-05-20 07:13:30,641 - INFO - Processed 31800000 reads so far
2011-05-20 07:13:42,696 - INFO - Processed 31900000 reads so far
2011-05-20 07:13:46,096 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:62990099-83010099
2011-05-20 07:13:51,707 - INFO - Processed 32000000 reads so far
2011-05-20 07:14:00,272 - INFO - Processed 32100000 reads so far
2011-05-20 07:14:08,261 - INFO - Processed 32200000 reads so far
2011-05-20 07:14:18,331 - INFO - Processed 32300000 reads so far
2011-05-20 07:14:28,639 - INFO - Processed 32400000 reads so far
2011-05-20 07:14:38,124 - INFO - Processed 32500000 reads so far
2011-05-20 07:14:47,746 - INFO - Processed 32600000 reads so far
2011-05-20 07:14:57,061 - INFO - Processed 32700000 reads so far
2011-05-20 07:15:06,166 - INFO - Processed 32800000 reads so far
2011-05-20 07:15:15,271 - INFO - Processed 32900000 reads so far
2011-05-20 07:15:25,476 - INFO - Processed 33000000 reads so far
2011-05-20 07:15:36,320 - INFO - Processed 33100000 reads so far
2011-05-20 07:15:40,246 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:82990107-103010107
2011-05-20 07:15:47,134 - INFO - Processed 33200000 reads so far
2011-05-20 07:15:55,825 - INFO - Processed 33300000 reads so far
2011-05-20 07:16:06,194 - INFO - Processed 33400000 reads so far
2011-05-20 07:16:18,833 - INFO - Processed 33500000 reads so far
2011-05-20 07:16:29,115 - INFO - Processed 33600000 reads so far
2011-05-20 07:16:39,752 - INFO - Processed 33700000 reads so far
2011-05-20 07:16:51,474 - INFO - Processed 33800000 reads so far
2011-05-20 07:17:03,129 - INFO - Processed 33900000 reads so far
2011-05-20 07:17:13,870 - INFO - Processed 34000000 reads so far
2011-05-20 07:17:27,078 - INFO - Processed 34100000 reads so far
2011-05-20 07:17:35,490 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:102990185-123010185
2011-05-20 07:17:36,623 - INFO - Processed 34200000 reads so far
2011-05-20 07:17:47,011 - INFO - Processed 34300000 reads so far
2011-05-20 07:17:56,524 - INFO - Processed 34400000 reads so far
2011-05-20 07:18:05,368 - INFO - Processed 34500000 reads so far
2011-05-20 07:18:15,887 - INFO - Processed 34600000 reads so far
2011-05-20 07:18:24,174 - INFO - Processed 34700000 reads so far
2011-05-20 07:18:33,699 - INFO - Processed 34800000 reads so far
2011-05-20 07:18:46,094 - INFO - Processed 34900000 reads so far
2011-05-20 07:18:55,344 - INFO - Processed 35000000 reads so far
2011-05-20 07:19:05,556 - INFO - Processed 35100000 reads so far
2011-05-20 07:19:15,497 - INFO - Processed 35200000 reads so far
2011-05-20 07:19:25,952 - INFO - Processed 35300000 reads so far
2011-05-20 07:19:27,099 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:122990195-143010195
2011-05-20 07:19:32,985 - INFO - Processed 35400000 reads so far
2011-05-20 07:19:35,339 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:2990005-23010005
2011-05-20 07:19:43,905 - INFO - Processed 35500000 reads so far
2011-05-20 07:19:52,200 - INFO - Processed 35600000 reads so far
2011-05-20 07:20:01,665 - INFO - Processed 35700000 reads so far
2011-05-20 07:20:12,042 - INFO - Processed 35800000 reads so far
2011-05-20 07:20:22,892 - INFO - Processed 35900000 reads so far
2011-05-20 07:20:31,638 - INFO - Processed 36000000 reads so far
2011-05-20 07:20:39,750 - INFO - Processed 36100000 reads so far
2011-05-20 07:20:49,206 - INFO - Processed 36200000 reads so far
2011-05-20 07:20:58,686 - INFO - Processed 36300000 reads so far
2011-05-20 07:21:07,156 - INFO - Processed 36400000 reads so far
2011-05-20 07:21:15,781 - INFO - Processed 36500000 reads so far
2011-05-20 07:21:23,233 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:22990023-43010023
2011-05-20 07:21:26,856 - INFO - Processed 36600000 reads so far
2011-05-20 07:21:36,977 - INFO - Processed 36700000 reads so far
2011-05-20 07:21:47,869 - INFO - Processed 36800000 reads so far
2011-05-20 07:21:55,411 - INFO - Processed 36900000 reads so far
2011-05-20 07:22:08,346 - INFO - Processed 37000000 reads so far
2011-05-20 07:22:18,662 - INFO - Processed 37100000 reads so far
2011-05-20 07:22:28,457 - INFO - Processed 37200000 reads so far
2011-05-20 07:22:38,711 - INFO - Processed 37300000 reads so far
2011-05-20 07:22:49,007 - INFO - Processed 37400000 reads so far
2011-05-20 07:22:58,096 - INFO - Processed 37500000 reads so far
2011-05-20 07:23:06,143 - INFO - Processed 37600000 reads so far
2011-05-20 07:23:17,367 - INFO - Processed 37700000 reads so far
2011-05-20 07:23:21,489 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:42990029-63010029
2011-05-20 07:23:28,420 - INFO - Processed 37800000 reads so far
2011-05-20 07:23:37,369 - INFO - Processed 37900000 reads so far
2011-05-20 07:23:46,619 - INFO - Processed 38000000 reads so far
2011-05-20 07:23:55,006 - INFO - Processed 38100000 reads so far
2011-05-20 07:24:05,370 - INFO - Processed 38200000 reads so far
2011-05-20 07:24:12,663 - INFO - Processed 38300000 reads so far
2011-05-20 07:24:23,498 - INFO - Processed 38400000 reads so far
2011-05-20 07:24:32,640 - INFO - Processed 38500000 reads so far
2011-05-20 07:24:41,632 - INFO - Processed 38600000 reads so far
2011-05-20 07:24:52,901 - INFO - Processed 38700000 reads so far
2011-05-20 07:25:01,602 - INFO - Processed 38800000 reads so far
2011-05-20 07:25:09,583 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:62990034-83010034
2011-05-20 07:25:11,648 - INFO - Processed 38900000 reads so far
2011-05-20 07:25:20,841 - INFO - Processed 39000000 reads so far
2011-05-20 07:25:29,933 - INFO - Processed 39100000 reads so far
2011-05-20 07:25:42,065 - INFO - Processed 39200000 reads so far
2011-05-20 07:25:52,487 - INFO - Processed 39300000 reads so far
2011-05-20 07:26:01,102 - INFO - Processed 39400000 reads so far
2011-05-20 07:26:10,076 - INFO - Processed 39500000 reads so far
2011-05-20 07:26:19,652 - INFO - Processed 39600000 reads so far
2011-05-20 07:26:28,721 - INFO - Processed 39700000 reads so far
2011-05-20 07:26:37,013 - INFO - Processed 39800000 reads so far
2011-05-20 07:26:47,307 - INFO - Processed 39900000 reads so far
2011-05-20 07:26:58,785 - INFO - Processed 40000000 reads so far
2011-05-20 07:27:05,989 - INFO - Processed 40100000 reads so far
2011-05-20 07:27:07,251 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:82990051-103010051
2011-05-20 07:27:16,996 - INFO - Processed 40200000 reads so far
2011-05-20 07:27:28,725 - INFO - Processed 40300000 reads so far
2011-05-20 07:27:36,289 - INFO - Processed 40400000 reads so far
2011-05-20 07:27:48,092 - INFO - Processed 40500000 reads so far
2011-05-20 07:27:56,058 - INFO - Processed 40600000 reads so far
2011-05-20 07:28:08,836 - INFO - Processed 40700000 reads so far
2011-05-20 07:28:18,631 - INFO - Processed 40800000 reads so far
2011-05-20 07:28:27,583 - INFO - Processed 40900000 reads so far
2011-05-20 07:28:36,978 - INFO - Processed 41000000 reads so far
2011-05-20 07:28:48,260 - INFO - Processed 41100000 reads so far
2011-05-20 07:28:57,823 - INFO - Processed 41200000 reads so far
2011-05-20 07:29:09,700 - INFO - Processed 41300000 reads so far
2011-05-20 07:29:11,254 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:102990092-123010092
2011-05-20 07:29:14,201 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16:2990054-23010054
2011-05-20 07:29:19,772 - INFO - Processed 41400000 reads so far
2011-05-20 07:29:29,054 - INFO - Processed 41500000 reads so far
2011-05-20 07:29:40,084 - INFO - Processed 41600000 reads so far
2011-05-20 07:29:51,584 - INFO - Processed 41700000 reads so far
2011-05-20 07:30:02,796 - INFO - Processed 41800000 reads so far
2011-05-20 07:30:15,933 - INFO - Processed 41900000 reads so far
2011-05-20 07:30:25,634 - INFO - Processed 42000000 reads so far
2011-05-20 07:30:34,463 - INFO - Processed 42100000 reads so far
2011-05-20 07:30:44,800 - INFO - Processed 42200000 reads so far
2011-05-20 07:30:54,201 - INFO - Processed 42300000 reads so far
2011-05-20 07:31:04,219 - INFO - Processed 42400000 reads so far
2011-05-20 07:31:17,534 - INFO - Processed 42500000 reads so far
2011-05-20 07:31:35,214 - INFO - Processed 42600000 reads so far
2011-05-20 07:31:35,925 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16:22990056-43010056
2011-05-20 07:31:46,586 - INFO - Processed 42700000 reads so far
2011-05-20 07:31:54,123 - INFO - Processed 42800000 reads so far
2011-05-20 07:32:04,040 - INFO - Processed 42900000 reads so far
2011-05-20 07:32:15,656 - INFO - Processed 43000000 reads so far
2011-05-20 07:32:26,685 - INFO - Processed 43100000 reads so far
2011-05-20 07:32:35,340 - INFO - Processed 43200000 reads so far
2011-05-20 07:32:45,871 - INFO - Processed 43300000 reads so far
2011-05-20 07:32:55,298 - INFO - Processed 43400000 reads so far
2011-05-20 07:33:04,297 - INFO - Processed 43500000 reads so far
2011-05-20 07:33:15,044 - INFO - Processed 43600000 reads so far
2011-05-20 07:33:24,149 - INFO - Processed 43700000 reads so far
2011-05-20 07:33:32,865 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16:42990057-63010057
2011-05-20 07:33:34,748 - INFO - Processed 43800000 reads so far
2011-05-20 07:33:44,847 - INFO - Processed 43900000 reads so far
2011-05-20 07:33:55,578 - INFO - Processed 44000000 reads so far
2011-05-20 07:34:05,253 - INFO - Processed 44100000 reads so far
2011-05-20 07:34:16,366 - INFO - Processed 44200000 reads so far
2011-05-20 07:34:24,275 - INFO - Processed 44300000 reads so far
2011-05-20 07:34:33,453 - INFO - Processed 44400000 reads so far
2011-05-20 07:34:42,781 - INFO - Processed 44500000 reads so far
2011-05-20 07:34:53,091 - INFO - Processed 44600000 reads so far
2011-05-20 07:35:03,474 - INFO - Processed 44700000 reads so far
2011-05-20 07:35:20,241 - INFO - Processed 44800000 reads so far
2011-05-20 07:35:32,998 - INFO - Processed 44900000 reads so far
2011-05-20 07:35:36,185 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16:62990084-83010084
2011-05-20 07:35:47,525 - INFO - Processed 45000000 reads so far
2011-05-20 07:35:58,736 - INFO - Processed 45100000 reads so far
2011-05-20 07:36:08,653 - INFO - Processed 45200000 reads so far
2011-05-20 07:36:18,864 - INFO - Processed 45300000 reads so far
2011-05-20 07:36:27,085 - INFO - Processed 45400000 reads so far
2011-05-20 07:36:37,285 - INFO - Processed 45500000 reads so far
2011-05-20 07:36:44,918 - INFO - Processed 45600000 reads so far
2011-05-20 07:36:53,661 - INFO - Processed 45700000 reads so far
2011-05-20 07:37:02,567 - INFO - Processed 45800000 reads so far
2011-05-20 07:37:13,724 - INFO - Processed 45900000 reads so far
2011-05-20 07:37:22,876 - INFO - Processed 46000000 reads so far
2011-05-20 07:37:23,258 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16:82990126-103010126
2011-05-20 07:37:34,192 - INFO - Processed 46100000 reads so far
2011-05-20 07:37:44,748 - INFO - Processed 46200000 reads so far
2011-05-20 07:37:52,107 - INFO - Processed 46300000 reads so far
2011-05-20 07:38:01,654 - INFO - Processed 46400000 reads so far
2011-05-20 07:38:11,198 - INFO - Processed 46500000 reads so far
2011-05-20 07:38:19,747 - INFO - Processed 46600000 reads so far
2011-05-20 07:38:30,165 - INFO - Processed 46700000 reads so far
2011-05-20 07:38:39,457 - INFO - Processed 46800000 reads so far
2011-05-20 07:38:50,980 - INFO - Processed 46900000 reads so far
2011-05-20 07:38:52,708 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16_random:0-20010073
2011-05-20 07:38:52,729 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17:2989990-23009990
2011-05-20 07:38:59,283 - INFO - Processed 47000000 reads so far
2011-05-20 07:39:13,301 - INFO - Processed 47100000 reads so far
2011-05-20 07:39:24,363 - INFO - Processed 47200000 reads so far
2011-05-20 07:39:36,317 - INFO - Processed 47300000 reads so far
2011-05-20 07:39:47,318 - INFO - Processed 47400000 reads so far
2011-05-20 07:39:57,983 - INFO - Processed 47500000 reads so far
2011-05-20 07:40:07,052 - INFO - Processed 47600000 reads so far
2011-05-20 07:40:18,189 - INFO - Processed 47700000 reads so far
2011-05-20 07:40:28,159 - INFO - Processed 47800000 reads so far
2011-05-20 07:40:38,365 - INFO - Processed 47900000 reads so far
2011-05-20 07:40:50,083 - INFO - Processed 48000000 reads so far
2011-05-20 07:41:01,409 - INFO - Processed 48100000 reads so far
2011-05-20 07:41:10,576 - INFO - Processed 48200000 reads so far
2011-05-20 07:41:11,399 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17:22990063-43010063
2011-05-20 07:41:19,638 - INFO - Processed 48300000 reads so far
2011-05-20 07:41:29,837 - INFO - Processed 48400000 reads so far
2011-05-20 07:41:37,059 - INFO - Processed 48500000 reads so far
2011-05-20 07:41:48,120 - INFO - Processed 48600000 reads so far
2011-05-20 07:41:56,676 - INFO - Processed 48700000 reads so far
2011-05-20 07:42:07,451 - INFO - Processed 48800000 reads so far
2011-05-20 07:42:17,946 - INFO - Processed 48900000 reads so far
2011-05-20 07:42:26,335 - INFO - Processed 49000000 reads so far
2011-05-20 07:42:35,502 - INFO - Processed 49100000 reads so far
2011-05-20 07:42:45,966 - INFO - Processed 49200000 reads so far
2011-05-20 07:42:55,541 - INFO - Processed 49300000 reads so far
2011-05-20 07:43:02,076 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17:42990102-63010102
2011-05-20 07:43:02,591 - INFO - Processed 49400000 reads so far
2011-05-20 07:43:12,004 - INFO - Processed 49500000 reads so far
2011-05-20 07:43:21,397 - INFO - Processed 49600000 reads so far
2011-05-20 07:43:30,132 - INFO - Processed 49700000 reads so far
2011-05-20 07:43:39,379 - INFO - Processed 49800000 reads so far
2011-05-20 07:43:46,755 - INFO - Processed 49900000 reads so far
2011-05-20 07:43:56,314 - INFO - Processed 50000000 reads so far
2011-05-20 07:44:06,199 - INFO - Processed 50100000 reads so far
2011-05-20 07:44:14,384 - INFO - Processed 50200000 reads so far
2011-05-20 07:44:23,312 - INFO - Processed 50300000 reads so far
2011-05-20 07:44:33,553 - INFO - Processed 50400000 reads so far
2011-05-20 07:44:41,922 - INFO - Processed 50500000 reads so far
2011-05-20 07:44:43,961 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17:62990108-83010108
2011-05-20 07:44:51,685 - INFO - Processed 50600000 reads so far
2011-05-20 07:45:00,701 - INFO - Processed 50700000 reads so far
2011-05-20 07:45:10,604 - INFO - Processed 50800000 reads so far
2011-05-20 07:45:18,856 - INFO - Processed 50900000 reads so far
2011-05-20 07:45:27,603 - INFO - Processed 51000000 reads so far
2011-05-20 07:45:37,756 - INFO - Processed 51100000 reads so far
2011-05-20 07:45:47,829 - INFO - Processed 51200000 reads so far
2011-05-20 07:45:55,519 - INFO - Processed 51300000 reads so far
2011-05-20 07:46:02,508 - INFO - Processed 51400000 reads so far
2011-05-20 07:46:13,371 - INFO - Processed 51500000 reads so far
2011-05-20 07:46:26,325 - INFO - Processed 51600000 reads so far
2011-05-20 07:46:37,483 - INFO - Processed 51700000 reads so far
2011-05-20 07:46:38,724 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17:82990113-103010113
2011-05-20 07:46:45,085 - INFO - Processed 51800000 reads so far
2011-05-20 07:46:52,860 - INFO - Processed 51900000 reads so far
2011-05-20 07:47:02,309 - INFO - Processed 52000000 reads so far
2011-05-20 07:47:13,860 - INFO - Processed 52100000 reads so far
2011-05-20 07:47:22,350 - INFO - Processed 52200000 reads so far
2011-05-20 07:47:31,328 - INFO - Processed 52300000 reads so far
2011-05-20 07:47:40,945 - INFO - Processed 52400000 reads so far
2011-05-20 07:47:43,350 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17_random:0-20010051
2011-05-20 07:47:45,562 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr18:2990000-23010000
2011-05-20 07:47:51,294 - INFO - Processed 52500000 reads so far
2011-05-20 07:48:00,318 - INFO - Processed 52600000 reads so far
2011-05-20 07:48:09,618 - INFO - Processed 52700000 reads so far
2011-05-20 07:48:19,110 - INFO - Processed 52800000 reads so far
2011-05-20 07:48:29,872 - INFO - Processed 52900000 reads so far
2011-05-20 07:48:38,959 - INFO - Processed 53000000 reads so far
2011-05-20 07:48:50,925 - INFO - Processed 53100000 reads so far
2011-05-20 07:49:00,062 - INFO - Processed 53200000 reads so far
2011-05-20 07:49:11,465 - INFO - Processed 53300000 reads so far
2011-05-20 07:49:22,495 - INFO - Processed 53400000 reads so far
2011-05-20 07:49:34,238 - INFO - Processed 53500000 reads so far
2011-05-20 07:49:45,599 - INFO - Processed 53600000 reads so far
2011-05-20 07:49:50,745 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr18:22990003-43010003
2011-05-20 07:49:53,573 - INFO - Processed 53700000 reads so far
2011-05-20 07:50:04,546 - INFO - Processed 53800000 reads so far
2011-05-20 07:50:13,988 - INFO - Processed 53900000 reads so far
2011-05-20 07:50:24,451 - INFO - Processed 54000000 reads so far
2011-05-20 07:50:31,360 - INFO - Processed 54100000 reads so far
2011-05-20 07:50:38,899 - INFO - Processed 54200000 reads so far
2011-05-20 07:50:49,992 - INFO - Processed 54300000 reads so far
2011-05-20 07:50:58,746 - INFO - Processed 54400000 reads so far
2011-05-20 07:51:11,096 - INFO - Processed 54500000 reads so far
2011-05-20 07:51:18,780 - INFO - Processed 54600000 reads so far
2011-05-20 07:51:29,681 - INFO - Processed 54700000 reads so far
2011-05-20 07:51:36,290 - INFO - Processed 54800000 reads so far
2011-05-20 07:51:40,019 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr18:42990020-63010020
2011-05-20 07:51:45,094 - INFO - Processed 54900000 reads so far
2011-05-20 07:51:54,847 - INFO - Processed 55000000 reads so far
2011-05-20 07:52:01,627 - INFO - Processed 55100000 reads so far
2011-05-20 07:52:11,337 - INFO - Processed 55200000 reads so far
2011-05-20 07:52:21,242 - INFO - Processed 55300000 reads so far
2011-05-20 07:52:28,605 - INFO - Processed 55400000 reads so far
2011-05-20 07:52:40,160 - INFO - Processed 55500000 reads so far
2011-05-20 07:52:47,475 - INFO - Processed 55600000 reads so far
2011-05-20 07:52:55,225 - INFO - Processed 55700000 reads so far
2011-05-20 07:53:06,051 - INFO - Processed 55800000 reads so far
2011-05-20 07:53:14,053 - INFO - Processed 55900000 reads so far
2011-05-20 07:53:22,913 - INFO - Processed 56000000 reads so far
2011-05-20 07:53:24,737 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr18:62990095-83010095
2011-05-20 07:53:33,916 - INFO - Processed 56100000 reads so far
2011-05-20 07:53:43,877 - INFO - Processed 56200000 reads so far
2011-05-20 07:53:52,480 - INFO - Processed 56300000 reads so far
2011-05-20 07:54:02,451 - INFO - Processed 56400000 reads so far
2011-05-20 07:54:10,239 - INFO - Processed 56500000 reads so far
2011-05-20 07:54:17,461 - INFO - Processed 56600000 reads so far
2011-05-20 07:54:24,785 - INFO - Processed 56700000 reads so far
2011-05-20 07:54:32,612 - INFO - Processed 56800000 reads so far
2011-05-20 07:54:39,492 - INFO - Processed 56900000 reads so far
2011-05-20 07:54:46,269 - INFO - Processed 57000000 reads so far
2011-05-20 07:54:53,352 - INFO - Processed 57100000 reads so far
2011-05-20 07:55:03,813 - INFO - Processed 57200000 reads so far
2011-05-20 07:55:04,315 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr18:82990130-103010130
2011-05-20 07:55:10,585 - INFO - Processed 57300000 reads so far
2011-05-20 07:55:17,940 - INFO - Processed 57400000 reads so far
2011-05-20 07:55:24,578 - INFO - Processed 57500000 reads so far
2011-05-20 07:55:33,889 - INFO - Processed 57600000 reads so far
2011-05-20 07:55:37,480 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr19:2990200-23010200
2011-05-20 07:55:40,737 - INFO - Processed 57700000 reads so far
2011-05-20 07:55:49,041 - INFO - Processed 57800000 reads so far
2011-05-20 07:55:56,926 - INFO - Processed 57900000 reads so far
2011-05-20 07:56:05,733 - INFO - Processed 58000000 reads so far
2011-05-20 07:56:12,999 - INFO - Processed 58100000 reads so far
2011-05-20 07:56:19,740 - INFO - Processed 58200000 reads so far
2011-05-20 07:56:26,790 - INFO - Processed 58300000 reads so far
2011-05-20 07:56:33,501 - INFO - Processed 58400000 reads so far
2011-05-20 07:56:42,117 - INFO - Processed 58500000 reads so far
2011-05-20 07:56:50,371 - INFO - Processed 58600000 reads so far
2011-05-20 07:56:57,715 - INFO - Processed 58700000 reads so far
2011-05-20 07:57:04,391 - INFO - Processed 58800000 reads so far
2011-05-20 07:57:04,495 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr19:22990208-43010208
2011-05-20 07:57:12,142 - INFO - Processed 58900000 reads so far
2011-05-20 07:57:20,237 - INFO - Processed 59000000 reads so far
2011-05-20 07:57:28,035 - INFO - Processed 59100000 reads so far
2011-05-20 07:57:36,625 - INFO - Processed 59200000 reads so far
2011-05-20 07:57:46,251 - INFO - Processed 59300000 reads so far
2011-05-20 07:57:54,029 - INFO - Processed 59400000 reads so far
2011-05-20 07:58:02,593 - INFO - Processed 59500000 reads so far
2011-05-20 07:58:10,905 - INFO - Processed 59600000 reads so far
2011-05-20 07:58:19,185 - INFO - Processed 59700000 reads so far
2011-05-20 07:58:26,312 - INFO - Processed 59800000 reads so far
2011-05-20 07:58:33,238 - INFO - Processed 59900000 reads so far
2011-05-20 07:58:40,481 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr19:42990218-63010218
2011-05-20 07:58:43,503 - INFO - Processed 60000000 reads so far
2011-05-20 07:58:52,890 - INFO - Processed 60100000 reads so far
2011-05-20 07:58:59,805 - INFO - Processed 60200000 reads so far
2011-05-20 07:59:11,944 - INFO - Processed 60300000 reads so far
2011-05-20 07:59:23,017 - INFO - Processed 60400000 reads so far
2011-05-20 07:59:31,348 - INFO - Processed 60500000 reads so far
2011-05-20 07:59:41,128 - INFO - Processed 60600000 reads so far
2011-05-20 07:59:51,017 - INFO - Processed 60700000 reads so far
2011-05-20 08:00:00,851 - INFO - Processed 60800000 reads so far
2011-05-20 08:00:08,487 - INFO - Processed 60900000 reads so far
2011-05-20 08:00:18,402 - INFO - Processed 61000000 reads so far
2011-05-20 08:00:25,682 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:2989978-23009978
2011-05-20 08:00:28,903 - INFO - Processed 61100000 reads so far
2011-05-20 08:00:40,046 - INFO - Processed 61200000 reads so far
2011-05-20 08:00:51,206 - INFO - Processed 61300000 reads so far
2011-05-20 08:01:03,296 - INFO - Processed 61400000 reads so far
2011-05-20 08:01:14,459 - INFO - Processed 61500000 reads so far
2011-05-20 08:01:25,327 - INFO - Processed 61600000 reads so far
2011-05-20 08:01:36,907 - INFO - Processed 61700000 reads so far
2011-05-20 08:01:48,263 - INFO - Processed 61800000 reads so far
2011-05-20 08:01:58,934 - INFO - Processed 61900000 reads so far
2011-05-20 08:02:07,822 - INFO - Processed 62000000 reads so far
2011-05-20 08:02:17,438 - INFO - Processed 62100000 reads so far
2011-05-20 08:02:25,471 - INFO - Processed 62200000 reads so far
2011-05-20 08:02:27,152 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:22990053-43010053
2011-05-20 08:02:35,915 - INFO - Processed 62300000 reads so far
2011-05-20 08:02:49,362 - INFO - Processed 62400000 reads so far
2011-05-20 08:03:00,646 - INFO - Processed 62500000 reads so far
2011-05-20 08:03:11,686 - INFO - Processed 62600000 reads so far
2011-05-20 08:03:24,794 - INFO - Processed 62700000 reads so far
2011-05-20 08:03:35,936 - INFO - Processed 62800000 reads so far
2011-05-20 08:03:49,032 - INFO - Processed 62900000 reads so far
2011-05-20 08:04:01,212 - INFO - Processed 63000000 reads so far
2011-05-20 08:04:12,718 - INFO - Processed 63100000 reads so far
2011-05-20 08:04:23,692 - INFO - Processed 63200000 reads so far
2011-05-20 08:04:36,548 - INFO - Processed 63300000 reads so far
2011-05-20 08:04:46,141 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:42990064-63010064
2011-05-20 08:04:47,799 - INFO - Processed 63400000 reads so far
2011-05-20 08:04:58,866 - INFO - Processed 63500000 reads so far
2011-05-20 08:05:10,917 - INFO - Processed 63600000 reads so far
2011-05-20 08:05:23,627 - INFO - Processed 63700000 reads so far
2011-05-20 08:05:35,974 - INFO - Processed 63800000 reads so far
2011-05-20 08:05:47,817 - INFO - Processed 63900000 reads so far
2011-05-20 08:05:58,946 - INFO - Processed 64000000 reads so far
2011-05-20 08:06:10,311 - INFO - Processed 64100000 reads so far
2011-05-20 08:06:21,845 - INFO - Processed 64200000 reads so far
2011-05-20 08:06:32,965 - INFO - Processed 64300000 reads so far
2011-05-20 08:06:44,232 - INFO - Processed 64400000 reads so far
2011-05-20 08:06:55,217 - INFO - Processed 64500000 reads so far
2011-05-20 08:06:59,057 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:62990108-83010108
2011-05-20 08:07:08,333 - INFO - Processed 64600000 reads so far
2011-05-20 08:07:19,553 - INFO - Processed 64700000 reads so far
2011-05-20 08:07:30,886 - INFO - Processed 64800000 reads so far
2011-05-20 08:07:41,683 - INFO - Processed 64900000 reads so far
2011-05-20 08:07:50,316 - INFO - Processed 65000000 reads so far
2011-05-20 08:07:59,749 - INFO - Processed 65100000 reads so far
2011-05-20 08:08:11,080 - INFO - Processed 65200000 reads so far
2011-05-20 08:08:20,411 - INFO - Processed 65300000 reads so far
2011-05-20 08:08:31,523 - INFO - Processed 65400000 reads so far
2011-05-20 08:08:42,661 - INFO - Processed 65500000 reads so far
2011-05-20 08:08:53,824 - INFO - Processed 65600000 reads so far
2011-05-20 08:09:04,388 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:82990121-103010121
2011-05-20 08:09:05,649 - INFO - Processed 65700000 reads so far
2011-05-20 08:09:16,987 - INFO - Processed 65800000 reads so far
2011-05-20 08:09:30,006 - INFO - Processed 65900000 reads so far
2011-05-20 08:09:44,903 - INFO - Processed 66000000 reads so far
2011-05-20 08:09:59,097 - INFO - Processed 66100000 reads so far
2011-05-20 08:10:11,687 - INFO - Processed 66200000 reads so far
2011-05-20 08:10:22,817 - INFO - Processed 66300000 reads so far
2011-05-20 08:10:34,674 - INFO - Processed 66400000 reads so far
2011-05-20 08:10:45,815 - INFO - Processed 66500000 reads so far
2011-05-20 08:10:59,299 - INFO - Processed 66600000 reads so far
2011-05-20 08:11:11,513 - INFO - Processed 66700000 reads so far
2011-05-20 08:11:22,622 - INFO - Processed 66800000 reads so far
2011-05-20 08:11:28,974 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:102990206-123010206
2011-05-20 08:11:35,618 - INFO - Processed 66900000 reads so far
2011-05-20 08:11:47,352 - INFO - Processed 67000000 reads so far
2011-05-20 08:11:58,187 - INFO - Processed 67100000 reads so far
2011-05-20 08:12:09,533 - INFO - Processed 67200000 reads so far
2011-05-20 08:12:20,537 - INFO - Processed 67300000 reads so far
2011-05-20 08:12:31,555 - INFO - Processed 67400000 reads so far
2011-05-20 08:12:42,500 - INFO - Processed 67500000 reads so far
2011-05-20 08:12:53,378 - INFO - Processed 67600000 reads so far
2011-05-20 08:13:04,431 - INFO - Processed 67700000 reads so far
2011-05-20 08:13:16,964 - INFO - Processed 67800000 reads so far
2011-05-20 08:13:27,991 - INFO - Processed 67900000 reads so far
2011-05-20 08:13:38,029 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:122990207-143010207
2011-05-20 08:13:39,818 - INFO - Processed 68000000 reads so far
2011-05-20 08:13:50,883 - INFO - Processed 68100000 reads so far
2011-05-20 08:14:01,783 - INFO - Processed 68200000 reads so far
2011-05-20 08:14:13,294 - INFO - Processed 68300000 reads so far
2011-05-20 08:14:24,301 - INFO - Processed 68400000 reads so far
2011-05-20 08:14:35,377 - INFO - Processed 68500000 reads so far
2011-05-20 08:14:46,414 - INFO - Processed 68600000 reads so far
2011-05-20 08:14:57,731 - INFO - Processed 68700000 reads so far
2011-05-20 08:15:10,291 - INFO - Processed 68800000 reads so far
2011-05-20 08:15:21,687 - INFO - Processed 68900000 reads so far
2011-05-20 08:15:33,765 - INFO - Processed 69000000 reads so far
2011-05-20 08:15:46,583 - INFO - Processed 69100000 reads so far
2011-05-20 08:15:54,317 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:142990220-163010220
2011-05-20 08:15:57,791 - INFO - Processed 69200000 reads so far
2011-05-20 08:16:09,894 - INFO - Processed 69300000 reads so far
2011-05-20 08:16:20,955 - INFO - Processed 69400000 reads so far
2011-05-20 08:16:37,226 - INFO - Processed 69500000 reads so far
2011-05-20 08:16:49,194 - INFO - Processed 69600000 reads so far
2011-05-20 08:17:00,626 - INFO - Processed 69700000 reads so far
2011-05-20 08:17:14,266 - INFO - Processed 69800000 reads so far
2011-05-20 08:17:24,375 - INFO - Processed 69900000 reads so far
2011-05-20 08:17:33,750 - INFO - Processed 70000000 reads so far
2011-05-20 08:17:45,130 - INFO - Processed 70100000 reads so far
2011-05-20 08:17:56,132 - INFO - Processed 70200000 reads so far
2011-05-20 08:18:06,584 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:162990238-183010238
2011-05-20 08:18:07,545 - INFO - Processed 70300000 reads so far
2011-05-20 08:18:17,437 - INFO - Processed 70400000 reads so far
2011-05-20 08:18:29,645 - INFO - Processed 70500000 reads so far
2011-05-20 08:18:41,335 - INFO - Processed 70600000 reads so far
2011-05-20 08:18:52,472 - INFO - Processed 70700000 reads so far
2011-05-20 08:19:03,108 - INFO - Processed 70800000 reads so far
2011-05-20 08:19:12,774 - INFO - Processed 70900000 reads so far
2011-05-20 08:19:23,293 - INFO - Processed 71000000 reads so far
2011-05-20 08:19:33,071 - INFO - Processed 71100000 reads so far
2011-05-20 08:19:44,346 - INFO - Processed 71200000 reads so far
2011-05-20 08:19:55,586 - INFO - Processed 71300000 reads so far
2011-05-20 08:20:05,334 - INFO - Processed 71400000 reads so far
2011-05-20 08:20:12,530 - INFO - Processed 71500000 reads so far
2011-05-20 08:20:14,381 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:182990266-203010266
2011-05-20 08:20:23,661 - INFO - Processed 71600000 reads so far
2011-05-20 08:20:34,093 - INFO - Processed 71700000 reads so far
2011-05-20 08:20:43,722 - INFO - Processed 71800000 reads so far
2011-05-20 08:20:51,708 - INFO - Processed 71900000 reads so far
2011-05-20 08:21:01,764 - INFO - Processed 72000000 reads so far
2011-05-20 08:21:11,735 - INFO - Processed 72100000 reads so far
2011-05-20 08:21:19,942 - INFO - Processed 72200000 reads so far
2011-05-20 08:21:29,310 - INFO - Processed 72300000 reads so far
2011-05-20 08:21:35,919 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1_random:0-20010000
2011-05-20 08:21:39,096 - INFO - Processed 72400000 reads so far
2011-05-20 08:21:46,851 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:2990000-23010000
2011-05-20 08:21:49,077 - INFO - Processed 72500000 reads so far
2011-05-20 08:22:00,161 - INFO - Processed 72600000 reads so far
2011-05-20 08:22:09,695 - INFO - Processed 72700000 reads so far
2011-05-20 08:22:18,732 - INFO - Processed 72800000 reads so far
2011-05-20 08:22:26,893 - INFO - Processed 72900000 reads so far
2011-05-20 08:22:36,885 - INFO - Processed 73000000 reads so far
2011-05-20 08:22:46,352 - INFO - Processed 73100000 reads so far
2011-05-20 08:22:56,371 - INFO - Processed 73200000 reads so far
2011-05-20 08:23:06,618 - INFO - Processed 73300000 reads so far
2011-05-20 08:23:18,855 - INFO - Processed 73400000 reads so far
2011-05-20 08:23:30,114 - INFO - Processed 73500000 reads so far
2011-05-20 08:23:41,760 - INFO - Processed 73600000 reads so far
2011-05-20 08:23:48,321 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:22990002-43010002
2011-05-20 08:23:52,022 - INFO - Processed 73700000 reads so far
2011-05-20 08:24:02,850 - INFO - Processed 73800000 reads so far
2011-05-20 08:24:13,153 - INFO - Processed 73900000 reads so far
2011-05-20 08:24:22,604 - INFO - Processed 74000000 reads so far
2011-05-20 08:24:32,254 - INFO - Processed 74100000 reads so far
2011-05-20 08:24:42,731 - INFO - Processed 74200000 reads so far
2011-05-20 08:24:51,410 - INFO - Processed 74300000 reads so far
2011-05-20 08:25:02,979 - INFO - Processed 74400000 reads so far
2011-05-20 08:25:14,907 - INFO - Processed 74500000 reads so far
2011-05-20 08:25:24,935 - INFO - Processed 74600000 reads so far
2011-05-20 08:25:33,248 - INFO - Processed 74700000 reads so far
2011-05-20 08:25:43,243 - INFO - Processed 74800000 reads so far
2011-05-20 08:25:48,347 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:42990009-63010009
2011-05-20 08:25:53,427 - INFO - Processed 74900000 reads so far
2011-05-20 08:26:03,012 - INFO - Processed 75000000 reads so far
2011-05-20 08:26:12,664 - INFO - Processed 75100000 reads so far
2011-05-20 08:26:21,146 - INFO - Processed 75200000 reads so far
2011-05-20 08:26:30,201 - INFO - Processed 75300000 reads so far
2011-05-20 08:26:38,677 - INFO - Processed 75400000 reads so far
2011-05-20 08:26:48,185 - INFO - Processed 75500000 reads so far
2011-05-20 08:26:57,078 - INFO - Processed 75600000 reads so far
2011-05-20 08:27:06,863 - INFO - Processed 75700000 reads so far
2011-05-20 08:27:18,012 - INFO - Processed 75800000 reads so far
2011-05-20 08:27:28,150 - INFO - Processed 75900000 reads so far
2011-05-20 08:27:35,263 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:62990030-83010030
2011-05-20 08:27:37,097 - INFO - Processed 76000000 reads so far
2011-05-20 08:27:47,392 - INFO - Processed 76100000 reads so far
2011-05-20 08:27:56,203 - INFO - Processed 76200000 reads so far
2011-05-20 08:28:06,517 - INFO - Processed 76300000 reads so far
2011-05-20 08:28:16,509 - INFO - Processed 76400000 reads so far
2011-05-20 08:28:24,969 - INFO - Processed 76500000 reads so far
2011-05-20 08:28:33,612 - INFO - Processed 76600000 reads so far
2011-05-20 08:28:44,051 - INFO - Processed 76700000 reads so far
2011-05-20 08:28:52,994 - INFO - Processed 76800000 reads so far
2011-05-20 08:29:01,885 - INFO - Processed 76900000 reads so far
2011-05-20 08:29:09,557 - INFO - Processed 77000000 reads so far
2011-05-20 08:29:19,444 - INFO - Processed 77100000 reads so far
2011-05-20 08:29:28,972 - INFO - Processed 77200000 reads so far
2011-05-20 08:29:29,099 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:82990072-103010072
2011-05-20 08:29:40,463 - INFO - Processed 77300000 reads so far
2011-05-20 08:29:51,470 - INFO - Processed 77400000 reads so far
2011-05-20 08:30:03,817 - INFO - Processed 77500000 reads so far
2011-05-20 08:30:14,250 - INFO - Processed 77600000 reads so far
2011-05-20 08:30:22,814 - INFO - Processed 77700000 reads so far
2011-05-20 08:30:33,849 - INFO - Processed 77800000 reads so far
2011-05-20 08:30:46,743 - INFO - Processed 77900000 reads so far
2011-05-20 08:30:57,721 - INFO - Processed 78000000 reads so far
2011-05-20 08:31:08,043 - INFO - Processed 78100000 reads so far
2011-05-20 08:31:17,276 - INFO - Processed 78200000 reads so far
2011-05-20 08:31:27,096 - INFO - Processed 78300000 reads so far
2011-05-20 08:31:38,232 - INFO - Processed 78400000 reads so far
2011-05-20 08:31:48,747 - INFO - Processed 78500000 reads so far
2011-05-20 08:31:59,433 - INFO - Processed 78600000 reads so far
2011-05-20 08:32:08,700 - INFO - Processed 78700000 reads so far
2011-05-20 08:32:18,654 - INFO - Processed 78800000 reads so far
2011-05-20 08:32:28,105 - INFO - Processed 78900000 reads so far
2011-05-20 08:32:40,117 - INFO - Processed 79000000 reads so far
2011-05-20 08:32:49,187 - INFO - Processed 79100000 reads so far
2011-05-20 08:32:58,358 - INFO - Processed 79200000 reads so far
2011-05-20 08:33:09,166 - INFO - Processed 79300000 reads so far
2011-05-20 08:33:17,260 - INFO - Processed 79400000 reads so far
2011-05-20 08:33:25,937 - INFO - Processed 79500000 reads so far
2011-05-20 08:33:34,605 - INFO - Processed 79600000 reads so far
2011-05-20 08:33:41,221 - INFO - Processed 79700000 reads so far
2011-05-20 08:33:49,206 - INFO - Processed 79800000 reads so far
2011-05-20 08:33:56,287 - INFO - Processed 79900000 reads so far
2011-05-20 08:34:04,783 - INFO - Processed 80000000 reads so far
2011-05-20 08:34:12,734 - INFO - Processed 80100000 reads so far
2011-05-20 08:34:20,624 - INFO - Processed 80200000 reads so far
2011-05-20 08:34:27,440 - INFO - Processed 80300000 reads so far
2011-05-20 08:34:35,420 - INFO - Processed 80400000 reads so far
2011-05-20 08:34:45,103 - INFO - Processed 80500000 reads so far
2011-05-20 08:34:53,255 - INFO - Processed 80600000 reads so far
2011-05-20 08:35:00,577 - INFO - Processed 80700000 reads so far
2011-05-20 08:35:09,009 - INFO - Processed 80800000 reads so far
2011-05-20 08:35:15,730 - INFO - Processed 80900000 reads so far
2011-05-20 08:35:22,933 - INFO - Processed 81000000 reads so far
2011-05-20 08:35:30,457 - INFO - Processed 81100000 reads so far
2011-05-20 08:35:40,796 - INFO - Processed 81200000 reads so far
2011-05-20 08:35:48,507 - INFO - Processed 81300000 reads so far
2011-05-20 08:35:57,763 - INFO - Processed 81400000 reads so far
2011-05-20 08:36:03,693 - INFO - Processed 81500000 reads so far
2011-05-20 08:36:12,815 - INFO - Processed 81600000 reads so far
2011-05-20 08:36:21,111 - INFO - Processed 81700000 reads so far
2011-05-20 08:36:28,254 - INFO - Processed 81800000 reads so far
2011-05-20 08:36:34,937 - INFO - Processed 81900000 reads so far
2011-05-20 08:36:42,967 - INFO - Processed 82000000 reads so far
2011-05-20 08:36:50,524 - INFO - Processed 82100000 reads so far
2011-05-20 08:36:57,724 - INFO - Processed 82200000 reads so far
2011-05-20 08:37:05,493 - INFO - Processed 82300000 reads so far
2011-05-20 08:37:15,161 - INFO - Processed 82400000 reads so far
2011-05-20 08:37:24,244 - INFO - Processed 82500000 reads so far
2011-05-20 08:37:33,401 - INFO - Processed 82600000 reads so far
2011-05-20 08:37:42,638 - INFO - Processed 82700000 reads so far
2011-05-20 08:37:52,216 - INFO - Processed 82800000 reads so far
2011-05-20 08:38:01,451 - INFO - Processed 82900000 reads so far
2011-05-20 08:38:13,428 - INFO - Processed 83000000 reads so far
2011-05-20 08:38:22,701 - INFO - Processed 83100000 reads so far
2011-05-20 08:38:32,072 - INFO - Processed 83200000 reads so far
2011-05-20 08:38:41,264 - INFO - Processed 83300000 reads so far
2011-05-20 08:38:51,753 - INFO - Processed 83400000 reads so far
2011-05-20 08:39:01,234 - INFO - Processed 83500000 reads so far
2011-05-20 08:39:10,484 - INFO - Processed 83600000 reads so far
2011-05-20 08:39:20,723 - INFO - Processed 83700000 reads so far
2011-05-20 08:39:31,321 - INFO - Processed 83800000 reads so far
2011-05-20 08:39:40,717 - INFO - Processed 83900000 reads so far
2011-05-20 08:39:49,658 - INFO - Processed 84000000 reads so far
2011-05-20 08:39:58,957 - INFO - Processed 84100000 reads so far
2011-05-20 08:40:09,178 - INFO - Processed 84200000 reads so far
2011-05-20 08:40:20,414 - INFO - Processed 84300000 reads so far
2011-05-20 08:40:29,354 - INFO - Processed 84400000 reads so far
2011-05-20 08:40:39,171 - INFO - Processed 84500000 reads so far
2011-05-20 08:40:51,622 - INFO - Processed 84600000 reads so far
2011-05-20 08:41:01,546 - INFO - Processed 84700000 reads so far
2011-05-20 08:41:08,580 - INFO - Processed 84800000 reads so far
2011-05-20 08:41:19,613 - INFO - Processed 84900000 reads so far
2011-05-20 08:41:27,251 - INFO - Processed 85000000 reads so far
2011-05-20 08:41:36,238 - INFO - Processed 85100000 reads so far
2011-05-20 08:41:43,134 - INFO - Processed 85200000 reads so far
2011-05-20 08:41:53,991 - INFO - Processed 85300000 reads so far
2011-05-20 08:42:01,837 - INFO - Processed 85400000 reads so far
2011-05-20 08:42:09,132 - INFO - Processed 85500000 reads so far
2011-05-20 08:42:17,214 - INFO - Processed 85600000 reads so far
2011-05-20 08:42:26,759 - INFO - Processed 85700000 reads so far
2011-05-20 08:42:35,959 - INFO - Processed 85800000 reads so far
2011-05-20 08:42:44,494 - INFO - Processed 85900000 reads so far
2011-05-20 08:42:52,752 - INFO - Processed 86000000 reads so far
2011-05-20 08:43:00,430 - INFO - Processed 86100000 reads so far
2011-05-20 08:43:09,262 - INFO - Processed 86200000 reads so far
2011-05-20 08:43:16,469 - INFO - Processed 86300000 reads so far
2011-05-20 08:43:23,368 - INFO - Processed 86400000 reads so far
2011-05-20 08:43:30,269 - INFO - Processed 86500000 reads so far
2011-05-20 08:43:37,297 - INFO - Processed 86600000 reads so far
2011-05-20 08:43:46,971 - INFO - Processed 86700000 reads so far
2011-05-20 08:43:56,692 - INFO - Processed 86800000 reads so far
2011-05-20 08:44:04,086 - INFO - Processed 86900000 reads so far
2011-05-20 08:44:19,776 - INFO - Processed 87000000 reads so far
2011-05-20 08:44:28,450 - INFO - Processed 87100000 reads so far
2011-05-20 08:44:36,991 - INFO - Processed 87200000 reads so far
2011-05-20 08:44:46,618 - INFO - Processed 87300000 reads so far
2011-05-20 08:44:54,889 - INFO - Processed 87400000 reads so far
2011-05-20 08:45:03,376 - INFO - Processed 87500000 reads so far
2011-05-20 08:45:11,685 - INFO - Processed 87600000 reads so far
2011-05-20 08:45:18,886 - INFO - Processed 87700000 reads so far
2011-05-20 08:45:26,593 - INFO - Processed 87800000 reads so far
2011-05-20 08:45:35,285 - INFO - Processed 87900000 reads so far
2011-05-20 08:45:45,522 - INFO - Processed 88000000 reads so far
2011-05-20 08:45:53,113 - INFO - Processed 88100000 reads so far
2011-05-20 08:46:01,258 - INFO - Processed 88200000 reads so far
2011-05-20 08:46:09,924 - INFO - Processed 88300000 reads so far
2011-05-20 08:46:17,370 - INFO - Processed 88400000 reads so far
2011-05-20 08:46:28,027 - INFO - Processed 88500000 reads so far
2011-05-20 08:46:38,404 - INFO - Processed 88600000 reads so far
2011-05-20 08:46:47,975 - INFO - Processed 88700000 reads so far
2011-05-20 08:46:56,182 - INFO - Processed 88800000 reads so far
2011-05-20 08:47:05,789 - INFO - Processed 88900000 reads so far
2011-05-20 08:47:14,896 - INFO - Processed 89000000 reads so far
2011-05-20 08:47:22,142 - INFO - Processed 89100000 reads so far
2011-05-20 08:47:30,933 - INFO - Processed 89200000 reads so far
2011-05-20 08:47:38,598 - INFO - Processed 89300000 reads so far
2011-05-20 08:47:45,774 - INFO - Processed 89400000 reads so far
2011-05-20 08:47:55,217 - INFO - Processed 89500000 reads so far
2011-05-20 08:48:04,859 - INFO - Processed 89600000 reads so far
2011-05-20 08:48:14,805 - INFO - Processed 89700000 reads so far
2011-05-20 08:48:24,487 - INFO - Processed 89800000 reads so far
2011-05-20 08:48:31,416 - INFO - Processed 89900000 reads so far
2011-05-20 08:48:40,004 - INFO - Processed 90000000 reads so far
2011-05-20 08:48:48,844 - INFO - Processed 90100000 reads so far
2011-05-20 08:48:58,629 - INFO - Processed 90200000 reads so far
2011-05-20 08:49:11,875 - INFO - Processed 90300000 reads so far
2011-05-20 08:49:17,943 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:102990083-123010083
2011-05-20 08:49:22,593 - INFO - Processed 90400000 reads so far
2011-05-20 08:49:33,275 - INFO - Processed 90500000 reads so far
2011-05-20 08:49:44,408 - INFO - Processed 90600000 reads so far
2011-05-20 08:49:53,820 - INFO - Processed 90700000 reads so far
2011-05-20 08:50:03,812 - INFO - Processed 90800000 reads so far
2011-05-20 08:50:13,198 - INFO - Processed 90900000 reads so far
2011-05-20 08:50:21,139 - INFO - Processed 91000000 reads so far
2011-05-20 08:50:32,795 - INFO - Processed 91100000 reads so far
2011-05-20 08:50:43,952 - INFO - Processed 91200000 reads so far
2011-05-20 08:50:55,243 - INFO - Processed 91300000 reads so far
2011-05-20 08:51:06,739 - INFO - Processed 91400000 reads so far
2011-05-20 08:51:18,594 - INFO - Processed 91500000 reads so far
2011-05-20 08:51:19,549 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:122990097-143010097
2011-05-20 08:51:29,129 - INFO - Processed 91600000 reads so far
2011-05-20 08:51:40,489 - INFO - Processed 91700000 reads so far
2011-05-20 08:51:51,158 - INFO - Processed 91800000 reads so far
2011-05-20 08:52:02,123 - INFO - Processed 91900000 reads so far
2011-05-20 08:52:13,445 - INFO - Processed 92000000 reads so far
2011-05-20 08:52:23,978 - INFO - Processed 92100000 reads so far
2011-05-20 08:52:35,591 - INFO - Processed 92200000 reads so far
2011-05-20 08:52:45,845 - INFO - Processed 92300000 reads so far
2011-05-20 08:52:56,308 - INFO - Processed 92400000 reads so far
2011-05-20 08:53:06,702 - INFO - Processed 92500000 reads so far
2011-05-20 08:53:16,833 - INFO - Processed 92600000 reads so far
2011-05-20 08:53:24,689 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:142990118-163010118
2011-05-20 08:53:25,160 - INFO - Processed 92700000 reads so far
2011-05-20 08:53:33,753 - INFO - Processed 92800000 reads so far
2011-05-20 08:53:41,891 - INFO - Processed 92900000 reads so far
2011-05-20 08:53:52,369 - INFO - Processed 93000000 reads so far
2011-05-20 08:54:00,680 - INFO - Processed 93100000 reads so far
2011-05-20 08:54:09,190 - INFO - Processed 93200000 reads so far
2011-05-20 08:54:17,389 - INFO - Processed 93300000 reads so far
2011-05-20 08:54:25,991 - INFO - Processed 93400000 reads so far
2011-05-20 08:54:34,681 - INFO - Processed 93500000 reads so far
2011-05-20 08:54:43,135 - INFO - Processed 93600000 reads so far
2011-05-20 08:54:52,031 - INFO - Processed 93700000 reads so far
2011-05-20 08:55:00,982 - INFO - Processed 93800000 reads so far
2011-05-20 08:55:09,795 - INFO - Processed 93900000 reads so far
2011-05-20 08:55:10,018 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:162990122-183010122
2011-05-20 08:55:18,208 - INFO - Processed 94000000 reads so far
2011-05-20 08:55:27,617 - INFO - Processed 94100000 reads so far
2011-05-20 08:55:38,360 - INFO - Processed 94200000 reads so far
2011-05-20 08:55:48,426 - INFO - Processed 94300000 reads so far
2011-05-20 08:55:57,722 - INFO - Processed 94400000 reads so far
2011-05-20 08:56:08,913 - INFO - Processed 94500000 reads so far
2011-05-20 08:56:17,466 - INFO - Processed 94600000 reads so far
2011-05-20 08:56:26,417 - INFO - Processed 94700000 reads so far
2011-05-20 08:56:35,660 - INFO - Processed 94800000 reads so far
2011-05-20 08:56:44,563 - INFO - Processed 94900000 reads so far
2011-05-20 08:56:54,529 - INFO - Processed 95000000 reads so far
2011-05-20 08:57:02,859 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:2989995-23009995
2011-05-20 08:57:02,991 - INFO - Processed 95100000 reads so far
2011-05-20 08:57:11,790 - INFO - Processed 95200000 reads so far
2011-05-20 08:57:20,476 - INFO - Processed 95300000 reads so far
2011-05-20 08:57:31,369 - INFO - Processed 95400000 reads so far
2011-05-20 08:57:40,516 - INFO - Processed 95500000 reads so far
2011-05-20 08:57:51,096 - INFO - Processed 95600000 reads so far
2011-05-20 08:57:59,708 - INFO - Processed 95700000 reads so far
2011-05-20 08:58:09,001 - INFO - Processed 95800000 reads so far
2011-05-20 08:58:19,401 - INFO - Processed 95900000 reads so far
2011-05-20 08:58:27,729 - INFO - Processed 96000000 reads so far
2011-05-20 08:58:37,571 - INFO - Processed 96100000 reads so far
2011-05-20 08:58:48,396 - INFO - Processed 96200000 reads so far
2011-05-20 08:58:50,912 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:22990023-43010023
2011-05-20 08:58:58,583 - INFO - Processed 96300000 reads so far
2011-05-20 08:59:06,650 - INFO - Processed 96400000 reads so far
2011-05-20 08:59:16,793 - INFO - Processed 96500000 reads so far
2011-05-20 08:59:27,749 - INFO - Processed 96600000 reads so far
2011-05-20 08:59:38,619 - INFO - Processed 96700000 reads so far
2011-05-20 08:59:46,978 - INFO - Processed 96800000 reads so far
2011-05-20 08:59:56,263 - INFO - Processed 96900000 reads so far
2011-05-20 09:00:07,981 - INFO - Processed 97000000 reads so far
2011-05-20 09:00:17,085 - INFO - Processed 97100000 reads so far
2011-05-20 09:00:26,274 - INFO - Processed 97200000 reads so far
2011-05-20 09:00:35,617 - INFO - Processed 97300000 reads so far
2011-05-20 09:00:44,086 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:42990052-63010052
2011-05-20 09:00:44,331 - INFO - Processed 97400000 reads so far
2011-05-20 09:00:52,941 - INFO - Processed 97500000 reads so far
2011-05-20 09:01:02,336 - INFO - Processed 97600000 reads so far
2011-05-20 09:01:11,547 - INFO - Processed 97700000 reads so far
2011-05-20 09:01:22,109 - INFO - Processed 97800000 reads so far
2011-05-20 09:01:34,802 - INFO - Processed 97900000 reads so far
2011-05-20 09:01:44,989 - INFO - Processed 98000000 reads so far
2011-05-20 09:01:56,636 - INFO - Processed 98100000 reads so far
2011-05-20 09:02:07,507 - INFO - Processed 98200000 reads so far
2011-05-20 09:02:18,609 - INFO - Processed 98300000 reads so far
2011-05-20 09:02:29,235 - INFO - Processed 98400000 reads so far
2011-05-20 09:02:39,259 - INFO - Processed 98500000 reads so far
2011-05-20 09:02:41,280 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:62990188-83010188
2011-05-20 09:02:49,705 - INFO - Processed 98600000 reads so far
2011-05-20 09:02:59,898 - INFO - Processed 98700000 reads so far
2011-05-20 09:03:09,194 - INFO - Processed 98800000 reads so far
2011-05-20 09:03:21,774 - INFO - Processed 98900000 reads so far
2011-05-20 09:03:31,468 - INFO - Processed 99000000 reads so far
2011-05-20 09:03:41,600 - INFO - Processed 99100000 reads so far
2011-05-20 09:04:19,196 - INFO - Processed 99200000 reads so far
2011-05-20 09:04:28,800 - INFO - Processed 99300000 reads so far
2011-05-20 09:04:38,700 - INFO - Processed 99400000 reads so far
2011-05-20 09:04:50,410 - INFO - Processed 99500000 reads so far
2011-05-20 09:04:59,915 - INFO - Processed 99600000 reads so far
2011-05-20 09:05:03,687 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:82990214-103010214
2011-05-20 09:05:08,549 - INFO - Processed 99700000 reads so far
2011-05-20 09:05:20,539 - INFO - Processed 99800000 reads so far
2011-05-20 09:05:32,169 - INFO - Processed 99900000 reads so far
2011-05-20 09:05:43,057 - INFO - Processed 100000000 reads so far
2011-05-20 09:05:53,823 - INFO - Processed 100100000 reads so far
2011-05-20 09:06:04,939 - INFO - Processed 100200000 reads so far
2011-05-20 09:06:15,407 - INFO - Processed 100300000 reads so far
2011-05-20 09:06:27,584 - INFO - Processed 100400000 reads so far
2011-05-20 09:06:39,924 - INFO - Processed 100500000 reads so far
2011-05-20 09:06:52,462 - INFO - Processed 100600000 reads so far
2011-05-20 09:07:04,854 - INFO - Processed 100700000 reads so far
2011-05-20 09:07:15,553 - INFO - Processed 100800000 reads so far
2011-05-20 09:07:17,381 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:102990240-123010240
2011-05-20 09:07:26,639 - INFO - Processed 100900000 reads so far
2011-05-20 09:07:37,190 - INFO - Processed 101000000 reads so far
2011-05-20 09:07:47,662 - INFO - Processed 101100000 reads so far
2011-05-20 09:07:58,368 - INFO - Processed 101200000 reads so far
2011-05-20 09:08:07,806 - INFO - Processed 101300000 reads so far
2011-05-20 09:08:18,699 - INFO - Processed 101400000 reads so far
2011-05-20 09:08:29,432 - INFO - Processed 101500000 reads so far
2011-05-20 09:08:40,727 - INFO - Processed 101600000 reads so far
2011-05-20 09:08:51,327 - INFO - Processed 101700000 reads so far
2011-05-20 09:09:02,501 - INFO - Processed 101800000 reads so far
2011-05-20 09:09:13,991 - INFO - Processed 101900000 reads so far
2011-05-20 09:09:23,405 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:122990247-143010247
2011-05-20 09:09:29,664 - INFO - Processed 102000000 reads so far
2011-05-20 09:09:40,522 - INFO - Processed 102100000 reads so far
2011-05-20 09:09:52,229 - INFO - Processed 102200000 reads so far
2011-05-20 09:10:03,477 - INFO - Processed 102300000 reads so far
2011-05-20 09:10:15,536 - INFO - Processed 102400000 reads so far
2011-05-20 09:10:26,660 - INFO - Processed 102500000 reads so far
2011-05-20 09:10:37,226 - INFO - Processed 102600000 reads so far
2011-05-20 09:10:47,644 - INFO - Processed 102700000 reads so far
2011-05-20 09:10:59,718 - INFO - Processed 102800000 reads so far
2011-05-20 09:11:10,813 - INFO - Processed 102900000 reads so far
2011-05-20 09:11:21,247 - INFO - Processed 103000000 reads so far
2011-05-20 09:11:32,091 - INFO - Processed 103100000 reads so far
2011-05-20 09:11:34,657 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:142990385-163010385
2011-05-20 09:11:44,499 - INFO - Processed 103200000 reads so far
2011-05-20 09:11:55,850 - INFO - Processed 103300000 reads so far
2011-05-20 09:12:06,633 - INFO - Processed 103400000 reads so far
2011-05-20 09:12:17,383 - INFO - Processed 103500000 reads so far
2011-05-20 09:12:28,622 - INFO - Processed 103600000 reads so far
2011-05-20 09:12:39,912 - INFO - Processed 103700000 reads so far
2011-05-20 09:12:51,142 - INFO - Processed 103800000 reads so far
2011-05-20 09:13:01,913 - INFO - Processed 103900000 reads so far
2011-05-20 09:13:12,467 - INFO - Processed 104000000 reads so far
2011-05-20 09:13:24,327 - INFO - Processed 104100000 reads so far
2011-05-20 09:13:26,146 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3_random:0-20010025
2011-05-20 09:13:26,294 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:2989988-23009988
2011-05-20 09:13:35,436 - INFO - Processed 104200000 reads so far
2011-05-20 09:13:45,804 - INFO - Processed 104300000 reads so far
2011-05-20 09:13:56,437 - INFO - Processed 104400000 reads so far
2011-05-20 09:14:09,031 - INFO - Processed 104500000 reads so far
2011-05-20 09:14:19,847 - INFO - Processed 104600000 reads so far
2011-05-20 09:14:30,463 - INFO - Processed 104700000 reads so far
2011-05-20 09:14:39,370 - INFO - Processed 104800000 reads so far
2011-05-20 09:14:47,834 - INFO - Processed 104900000 reads so far
2011-05-20 09:14:56,888 - INFO - Processed 105000000 reads so far
2011-05-20 09:15:04,746 - INFO - Processed 105100000 reads so far
2011-05-20 09:15:13,657 - INFO - Processed 105200000 reads so far
2011-05-20 09:15:23,933 - INFO - Processed 105300000 reads so far
2011-05-20 09:15:24,963 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:22989995-43009995
2011-05-20 09:15:34,319 - INFO - Processed 105400000 reads so far
2011-05-20 09:15:43,564 - INFO - Processed 105500000 reads so far
2011-05-20 09:15:53,601 - INFO - Processed 105600000 reads so far
2011-05-20 09:16:03,094 - INFO - Processed 105700000 reads so far
2011-05-20 09:16:12,871 - INFO - Processed 105800000 reads so far
2011-05-20 09:16:23,333 - INFO - Processed 105900000 reads so far
2011-05-20 09:16:36,719 - INFO - Processed 106000000 reads so far
2011-05-20 09:16:47,397 - INFO - Processed 106100000 reads so far
2011-05-20 09:16:58,814 - INFO - Processed 106200000 reads so far
2011-05-20 09:17:07,152 - INFO - Processed 106300000 reads so far
2011-05-20 09:17:17,952 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:42990013-63010013
2011-05-20 09:17:18,188 - INFO - Processed 106400000 reads so far
2011-05-20 09:17:27,099 - INFO - Processed 106500000 reads so far
2011-05-20 09:17:36,645 - INFO - Processed 106600000 reads so far
2011-05-20 09:17:45,442 - INFO - Processed 106700000 reads so far
2011-05-20 09:17:55,957 - INFO - Processed 106800000 reads so far
2011-05-20 09:18:05,119 - INFO - Processed 106900000 reads so far
2011-05-20 09:18:17,151 - INFO - Processed 107000000 reads so far
2011-05-20 09:18:28,273 - INFO - Processed 107100000 reads so far
2011-05-20 09:18:36,086 - INFO - Processed 107200000 reads so far
2011-05-20 09:18:44,409 - INFO - Processed 107300000 reads so far
2011-05-20 09:18:56,952 - INFO - Processed 107400000 reads so far
2011-05-20 09:19:06,397 - INFO - Processed 107500000 reads so far
2011-05-20 09:19:15,879 - INFO - Processed 107600000 reads so far
2011-05-20 09:19:16,279 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:62990028-83010028
2011-05-20 09:19:25,654 - INFO - Processed 107700000 reads so far
2011-05-20 09:19:33,451 - INFO - Processed 107800000 reads so far
2011-05-20 09:19:43,529 - INFO - Processed 107900000 reads so far
2011-05-20 09:19:51,751 - INFO - Processed 108000000 reads so far
2011-05-20 09:20:01,770 - INFO - Processed 108100000 reads so far
2011-05-20 09:20:12,215 - INFO - Processed 108200000 reads so far
2011-05-20 09:20:24,299 - INFO - Processed 108300000 reads so far
2011-05-20 09:20:35,686 - INFO - Processed 108400000 reads so far
2011-05-20 09:20:44,905 - INFO - Processed 108500000 reads so far
2011-05-20 09:20:54,628 - INFO - Processed 108600000 reads so far
2011-05-20 09:21:03,823 - INFO - Processed 108700000 reads so far
2011-05-20 09:21:08,997 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:82990093-103010093
2011-05-20 09:21:12,823 - INFO - Processed 108800000 reads so far
2011-05-20 09:21:22,697 - INFO - Processed 108900000 reads so far
2011-05-20 09:21:32,218 - INFO - Processed 109000000 reads so far
2011-05-20 09:21:41,280 - INFO - Processed 109100000 reads so far
2011-05-20 09:21:49,418 - INFO - Processed 109200000 reads so far
2011-05-20 09:21:59,828 - INFO - Processed 109300000 reads so far
2011-05-20 09:22:11,818 - INFO - Processed 109400000 reads so far
2011-05-20 09:22:23,577 - INFO - Processed 109500000 reads so far
2011-05-20 09:22:31,351 - INFO - Processed 109600000 reads so far
2011-05-20 09:22:40,433 - INFO - Processed 109700000 reads so far
2011-05-20 09:22:50,856 - INFO - Processed 109800000 reads so far
2011-05-20 09:23:00,888 - INFO - Processed 109900000 reads so far
2011-05-20 09:23:04,740 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:102990108-123010108
2011-05-20 09:23:10,001 - INFO - Processed 110000000 reads so far
2011-05-20 09:23:18,772 - INFO - Processed 110100000 reads so far
2011-05-20 09:23:31,300 - INFO - Processed 110200000 reads so far
2011-05-20 09:23:40,276 - INFO - Processed 110300000 reads so far
2011-05-20 09:23:48,831 - INFO - Processed 110400000 reads so far
2011-05-20 09:23:57,906 - INFO - Processed 110500000 reads so far
2011-05-20 09:24:07,353 - INFO - Processed 110600000 reads so far
2011-05-20 09:24:17,422 - INFO - Processed 110700000 reads so far
2011-05-20 09:24:25,723 - INFO - Processed 110800000 reads so far
2011-05-20 09:24:36,573 - INFO - Processed 110900000 reads so far
2011-05-20 09:24:47,280 - INFO - Processed 111000000 reads so far
2011-05-20 09:24:49,568 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:122990114-143010114
2011-05-20 09:24:57,603 - INFO - Processed 111100000 reads so far
2011-05-20 09:25:05,939 - INFO - Processed 111200000 reads so far
2011-05-20 09:25:18,791 - INFO - Processed 111300000 reads so far
2011-05-20 09:25:29,670 - INFO - Processed 111400000 reads so far
2011-05-20 09:25:41,337 - INFO - Processed 111500000 reads so far
2011-05-20 09:25:53,870 - INFO - Processed 111600000 reads so far
2011-05-20 09:26:05,004 - INFO - Processed 111700000 reads so far
2011-05-20 09:26:13,588 - INFO - Processed 111800000 reads so far
2011-05-20 09:26:22,793 - INFO - Processed 111900000 reads so far
2011-05-20 09:26:32,607 - INFO - Processed 112000000 reads so far
2011-05-20 09:26:44,087 - INFO - Processed 112100000 reads so far
2011-05-20 09:26:54,742 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:142990137-163010137
2011-05-20 09:26:54,985 - INFO - Processed 112200000 reads so far
2011-05-20 09:27:30,322 - INFO - Processed 112300000 reads so far
2011-05-20 09:27:52,962 - INFO - Processed 112400000 reads so far
2011-05-20 09:28:02,797 - INFO - Processed 112500000 reads so far
2011-05-20 09:28:12,978 - INFO - Processed 112600000 reads so far
2011-05-20 09:28:23,242 - INFO - Processed 112700000 reads so far
2011-05-20 09:28:32,975 - INFO - Processed 112800000 reads so far
2011-05-20 09:28:42,296 - INFO - Processed 112900000 reads so far
2011-05-20 09:28:52,697 - INFO - Processed 113000000 reads so far
2011-05-20 09:28:55,124 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4_random:0-20010033
2011-05-20 09:28:55,877 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:2990000-23010000
2011-05-20 09:29:03,384 - INFO - Processed 113100000 reads so far
2011-05-20 09:29:14,628 - INFO - Processed 113200000 reads so far
2011-05-20 09:29:25,079 - INFO - Processed 113300000 reads so far
2011-05-20 09:29:35,897 - INFO - Processed 113400000 reads so far
2011-05-20 09:29:44,364 - INFO - Processed 113500000 reads so far
2011-05-20 09:29:52,960 - INFO - Processed 113600000 reads so far
2011-05-20 09:30:02,832 - INFO - Processed 113700000 reads so far
2011-05-20 09:30:12,759 - INFO - Processed 113800000 reads so far
2011-05-20 09:30:23,875 - INFO - Processed 113900000 reads so far
2011-05-20 09:30:32,409 - INFO - Processed 114000000 reads so far
2011-05-20 09:30:44,968 - INFO - Processed 114100000 reads so far
2011-05-20 09:30:53,614 - INFO - Processed 114200000 reads so far
2011-05-20 09:30:53,994 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:22990009-43010009
2011-05-20 09:31:02,554 - INFO - Processed 114300000 reads so far
2011-05-20 09:31:10,843 - INFO - Processed 114400000 reads so far
2011-05-20 09:31:21,320 - INFO - Processed 114500000 reads so far
2011-05-20 09:31:32,449 - INFO - Processed 114600000 reads so far
2011-05-20 09:31:44,795 - INFO - Processed 114700000 reads so far
2011-05-20 09:31:55,788 - INFO - Processed 114800000 reads so far
2011-05-20 09:32:07,285 - INFO - Processed 114900000 reads so far
2011-05-20 09:32:18,001 - INFO - Processed 115000000 reads so far
2011-05-20 09:32:30,118 - INFO - Processed 115100000 reads so far
2011-05-20 09:32:40,679 - INFO - Processed 115200000 reads so far
2011-05-20 09:32:49,874 - INFO - Processed 115300000 reads so far
2011-05-20 09:32:56,840 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:42990019-63010019
2011-05-20 09:32:58,520 - INFO - Processed 115400000 reads so far
2011-05-20 09:33:06,056 - INFO - Processed 115500000 reads so far
2011-05-20 09:33:18,368 - INFO - Processed 115600000 reads so far
2011-05-20 09:33:29,243 - INFO - Processed 115700000 reads so far
2011-05-20 09:33:39,570 - INFO - Processed 115800000 reads so far
2011-05-20 09:33:52,567 - INFO - Processed 115900000 reads so far
2011-05-20 09:34:00,748 - INFO - Processed 116000000 reads so far
2011-05-20 09:34:08,556 - INFO - Processed 116100000 reads so far
2011-05-20 09:34:16,626 - INFO - Processed 116200000 reads so far
2011-05-20 09:34:28,646 - INFO - Processed 116300000 reads so far
2011-05-20 09:34:38,024 - INFO - Processed 116400000 reads so far
2011-05-20 09:34:46,530 - INFO - Processed 116500000 reads so far
2011-05-20 09:34:47,104 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:62990091-83010091
2011-05-20 09:34:56,927 - INFO - Processed 116600000 reads so far
2011-05-20 09:35:07,962 - INFO - Processed 116700000 reads so far
2011-05-20 09:35:17,884 - INFO - Processed 116800000 reads so far
2011-05-20 09:35:26,707 - INFO - Processed 116900000 reads so far
2011-05-20 09:35:37,720 - INFO - Processed 117000000 reads so far
2011-05-20 09:35:46,376 - INFO - Processed 117100000 reads so far
2011-05-20 09:35:55,645 - INFO - Processed 117200000 reads so far
2011-05-20 09:36:04,556 - INFO - Processed 117300000 reads so far
2011-05-20 09:36:15,106 - INFO - Processed 117400000 reads so far
2011-05-20 09:36:24,079 - INFO - Processed 117500000 reads so far
2011-05-20 09:36:33,544 - INFO - Processed 117600000 reads so far
2011-05-20 09:36:37,268 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:82990136-103010136
2011-05-20 09:36:43,030 - INFO - Processed 117700000 reads so far
2011-05-20 09:36:54,187 - INFO - Processed 117800000 reads so far
2011-05-20 09:37:03,536 - INFO - Processed 117900000 reads so far
2011-05-20 09:37:15,498 - INFO - Processed 118000000 reads so far
2011-05-20 09:37:23,983 - INFO - Processed 118100000 reads so far
2011-05-20 09:37:37,616 - INFO - Processed 118200000 reads so far
2011-05-20 09:37:46,441 - INFO - Processed 118300000 reads so far
2011-05-20 09:37:55,571 - INFO - Processed 118400000 reads so far
2011-05-20 09:38:03,512 - INFO - Processed 118500000 reads so far
2011-05-20 09:38:14,194 - INFO - Processed 118600000 reads so far
2011-05-20 09:38:22,730 - INFO - Processed 118700000 reads so far
2011-05-20 09:38:28,737 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:102990140-123010140
2011-05-20 09:38:32,375 - INFO - Processed 118800000 reads so far
2011-05-20 09:38:42,838 - INFO - Processed 118900000 reads so far
2011-05-20 09:38:53,181 - INFO - Processed 119000000 reads so far
2011-05-20 09:39:03,883 - INFO - Processed 119100000 reads so far
2011-05-20 09:39:16,222 - INFO - Processed 119200000 reads so far
2011-05-20 09:39:24,678 - INFO - Processed 119300000 reads so far
2011-05-20 09:39:32,948 - INFO - Processed 119400000 reads so far
2011-05-20 09:39:42,534 - INFO - Processed 119500000 reads so far
2011-05-20 09:39:50,129 - INFO - Processed 119600000 reads so far
2011-05-20 09:40:00,332 - INFO - Processed 119700000 reads so far
2011-05-20 09:40:10,777 - INFO - Processed 119800000 reads so far
2011-05-20 09:40:20,275 - INFO - Processed 119900000 reads so far
2011-05-20 09:40:28,126 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:122990159-143010159
2011-05-20 09:40:29,269 - INFO - Processed 120000000 reads so far
2011-05-20 09:40:38,039 - INFO - Processed 120100000 reads so far
2011-05-20 09:40:49,175 - INFO - Processed 120200000 reads so far
2011-05-20 09:40:56,211 - INFO - Processed 120300000 reads so far
2011-05-20 09:41:04,059 - INFO - Processed 120400000 reads so far
2011-05-20 09:41:14,076 - INFO - Processed 120500000 reads so far
2011-05-20 09:41:20,816 - INFO - Processed 120600000 reads so far
2011-05-20 09:41:27,645 - INFO - Processed 120700000 reads so far
2011-05-20 09:41:38,640 - INFO - Processed 120800000 reads so far
2011-05-20 09:41:48,782 - INFO - Processed 120900000 reads so far
2011-05-20 09:41:58,393 - INFO - Processed 121000000 reads so far
2011-05-20 09:42:06,995 - INFO - Processed 121100000 reads so far
2011-05-20 09:42:15,114 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:142990223-163010223
2011-05-20 09:42:17,554 - INFO - Processed 121200000 reads so far
2011-05-20 09:42:27,357 - INFO - Processed 121300000 reads so far
2011-05-20 09:42:35,448 - INFO - Processed 121400000 reads so far
2011-05-20 09:42:45,242 - INFO - Processed 121500000 reads so far
2011-05-20 09:42:56,667 - INFO - Processed 121600000 reads so far
2011-05-20 09:43:07,039 - INFO - Processed 121700000 reads so far
2011-05-20 09:43:09,877 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5_random:0-20010058
2011-05-20 09:43:10,268 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:2989978-23009978
2011-05-20 09:43:15,761 - INFO - Processed 121800000 reads so far
2011-05-20 09:43:27,142 - INFO - Processed 121900000 reads so far
2011-05-20 09:43:37,570 - INFO - Processed 122000000 reads so far
2011-05-20 09:43:47,307 - INFO - Processed 122100000 reads so far
2011-05-20 09:43:56,607 - INFO - Processed 122200000 reads so far
2011-05-20 09:44:06,234 - INFO - Processed 122300000 reads so far
2011-05-20 09:44:16,046 - INFO - Processed 122400000 reads so far
2011-05-20 09:44:25,285 - INFO - Processed 122500000 reads so far
2011-05-20 09:44:33,956 - INFO - Processed 122600000 reads so far
2011-05-20 09:44:44,029 - INFO - Processed 122700000 reads so far
2011-05-20 09:44:52,908 - INFO - Processed 122800000 reads so far
2011-05-20 09:45:00,898 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:22989988-43009988
2011-05-20 09:45:03,260 - INFO - Processed 122900000 reads so far
2011-05-20 09:45:12,333 - INFO - Processed 123000000 reads so far
2011-05-20 09:45:24,640 - INFO - Processed 123100000 reads so far
2011-05-20 09:45:40,090 - INFO - Processed 123200000 reads so far
2011-05-20 09:45:56,529 - INFO - Processed 123300000 reads so far
2011-05-20 09:46:03,366 - INFO - Processed 123400000 reads so far
2011-05-20 09:46:10,388 - INFO - Processed 123500000 reads so far
2011-05-20 09:46:18,900 - INFO - Processed 123600000 reads so far
2011-05-20 09:46:27,694 - INFO - Processed 123700000 reads so far
2011-05-20 09:46:37,059 - INFO - Processed 123800000 reads so far
2011-05-20 09:46:45,267 - INFO - Processed 123900000 reads so far
2011-05-20 09:46:55,858 - INFO - Processed 124000000 reads so far
2011-05-20 09:47:00,684 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:42990016-63010016
2011-05-20 09:47:04,463 - INFO - Processed 124100000 reads so far
2011-05-20 09:47:12,393 - INFO - Processed 124200000 reads so far
2011-05-20 09:47:23,740 - INFO - Processed 124300000 reads so far
2011-05-20 09:47:31,987 - INFO - Processed 124400000 reads so far
2011-05-20 09:47:41,395 - INFO - Processed 124500000 reads so far
2011-05-20 09:47:48,998 - INFO - Processed 124600000 reads so far
2011-05-20 09:47:57,631 - INFO - Processed 124700000 reads so far
2011-05-20 09:48:08,719 - INFO - Processed 124800000 reads so far
2011-05-20 09:48:18,470 - INFO - Processed 124900000 reads so far
2011-05-20 09:48:26,539 - INFO - Processed 125000000 reads so far
2011-05-20 09:48:34,475 - INFO - Processed 125100000 reads so far
2011-05-20 09:48:44,940 - INFO - Processed 125200000 reads so far
2011-05-20 09:48:48,796 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:62990028-83010028
2011-05-20 09:48:55,447 - INFO - Processed 125300000 reads so far
2011-05-20 09:49:05,869 - INFO - Processed 125400000 reads so far
2011-05-20 09:49:15,460 - INFO - Processed 125500000 reads so far
2011-05-20 09:49:23,197 - INFO - Processed 125600000 reads so far
2011-05-20 09:49:33,147 - INFO - Processed 125700000 reads so far
2011-05-20 09:49:43,342 - INFO - Processed 125800000 reads so far
2011-05-20 09:49:50,540 - INFO - Processed 125900000 reads so far
2011-05-20 09:50:02,684 - INFO - Processed 126000000 reads so far
2011-05-20 09:50:11,284 - INFO - Processed 126100000 reads so far
2011-05-20 09:50:20,570 - INFO - Processed 126200000 reads so far
2011-05-20 09:50:30,846 - INFO - Processed 126300000 reads so far
2011-05-20 09:50:37,672 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:82990045-103010045
2011-05-20 09:50:40,164 - INFO - Processed 126400000 reads so far
2011-05-20 09:50:49,431 - INFO - Processed 126500000 reads so far
2011-05-20 09:50:59,732 - INFO - Processed 126600000 reads so far
2011-05-20 09:51:06,571 - INFO - Processed 126700000 reads so far
2011-05-20 09:51:14,149 - INFO - Processed 126800000 reads so far
2011-05-20 09:51:22,280 - INFO - Processed 126900000 reads so far
2011-05-20 09:51:33,893 - INFO - Processed 127000000 reads so far
2011-05-20 09:51:42,581 - INFO - Processed 127100000 reads so far
2011-05-20 09:51:51,583 - INFO - Processed 127200000 reads so far
2011-05-20 09:52:00,385 - INFO - Processed 127300000 reads so far
2011-05-20 09:52:07,552 - INFO - Processed 127400000 reads so far
2011-05-20 09:52:15,772 - INFO - Processed 127500000 reads so far
2011-05-20 09:52:22,415 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:102990049-123010049
2011-05-20 09:52:24,381 - INFO - Processed 127600000 reads so far
2011-05-20 09:52:30,225 - INFO - Processed 127700000 reads so far
2011-05-20 09:52:35,880 - INFO - Processed 127800000 reads so far
2011-05-20 09:52:45,652 - INFO - Processed 127900000 reads so far
2011-05-20 09:52:53,843 - INFO - Processed 128000000 reads so far
2011-05-20 09:52:59,575 - INFO - Processed 128100000 reads so far
2011-05-20 09:53:05,234 - INFO - Processed 128200000 reads so far
2011-05-20 09:53:12,922 - INFO - Processed 128300000 reads so far
2011-05-20 09:53:22,671 - INFO - Processed 128400000 reads so far
2011-05-20 09:53:31,193 - INFO - Processed 128500000 reads so far
2011-05-20 09:53:40,225 - INFO - Processed 128600000 reads so far
2011-05-20 09:53:47,193 - INFO - Processed 128700000 reads so far
2011-05-20 09:53:56,344 - INFO - Processed 128800000 reads so far
2011-05-20 09:54:06,518 - INFO - Processed 128900000 reads so far
2011-05-20 09:54:13,157 - INFO - Processed 129000000 reads so far
2011-05-20 09:54:21,710 - INFO - Processed 129100000 reads so far
2011-05-20 09:54:29,685 - INFO - Processed 129200000 reads so far
2011-05-20 09:54:39,956 - INFO - Processed 129300000 reads so far
2011-05-20 09:54:48,988 - INFO - Processed 129400000 reads so far
2011-05-20 09:54:58,473 - INFO - Processed 129500000 reads so far
2011-05-20 09:55:06,945 - INFO - Processed 129600000 reads so far
2011-05-20 09:55:07,336 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:122990095-143010095
2011-05-20 09:55:14,504 - INFO - Processed 129700000 reads so far
2011-05-20 09:55:22,866 - INFO - Processed 129800000 reads so far
2011-05-20 09:55:31,494 - INFO - Processed 129900000 reads so far
2011-05-20 09:55:40,512 - INFO - Processed 130000000 reads so far
2011-05-20 09:55:48,601 - INFO - Processed 130100000 reads so far
2011-05-20 09:55:58,411 - INFO - Processed 130200000 reads so far
2011-05-20 09:56:06,379 - INFO - Processed 130300000 reads so far
2011-05-20 09:56:13,609 - INFO - Processed 130400000 reads so far
2011-05-20 09:56:22,375 - INFO - Processed 130500000 reads so far
2011-05-20 09:56:30,279 - INFO - Processed 130600000 reads so far
2011-05-20 09:56:38,731 - INFO - Processed 130700000 reads so far
2011-05-20 09:56:47,597 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:142990099-163010099
2011-05-20 09:56:48,221 - INFO - Processed 130800000 reads so far
2011-05-20 09:56:59,174 - INFO - Processed 130900000 reads so far
2011-05-20 09:57:10,242 - INFO - Processed 131000000 reads so far
2011-05-20 09:57:21,808 - INFO - Processed 131100000 reads so far
2011-05-20 09:57:31,506 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:2990019-23010019
2011-05-20 09:57:32,404 - INFO - Processed 131200000 reads so far
2011-05-20 09:57:42,506 - INFO - Processed 131300000 reads so far
2011-05-20 09:57:49,645 - INFO - Processed 131400000 reads so far
2011-05-20 09:57:59,570 - INFO - Processed 131500000 reads so far
2011-05-20 09:58:08,932 - INFO - Processed 131600000 reads so far
2011-05-20 09:58:16,170 - INFO - Processed 131700000 reads so far
2011-05-20 09:58:26,567 - INFO - Processed 131800000 reads so far
2011-05-20 09:58:35,082 - INFO - Processed 131900000 reads so far
2011-05-20 09:58:45,187 - INFO - Processed 132000000 reads so far
2011-05-20 09:58:51,909 - INFO - Processed 132100000 reads so far
2011-05-20 09:59:00,163 - INFO - Processed 132200000 reads so far
2011-05-20 09:59:01,373 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:22990078-43010078
2011-05-20 09:59:07,346 - INFO - Processed 132300000 reads so far
2011-05-20 09:59:14,229 - INFO - Processed 132400000 reads so far
2011-05-20 09:59:20,992 - INFO - Processed 132500000 reads so far
2011-05-20 09:59:27,928 - INFO - Processed 132600000 reads so far
2011-05-20 09:59:36,096 - INFO - Processed 132700000 reads so far
2011-05-20 09:59:42,972 - INFO - Processed 132800000 reads so far
2011-05-20 09:59:50,803 - INFO - Processed 132900000 reads so far
2011-05-20 09:59:59,105 - INFO - Processed 133000000 reads so far
2011-05-20 10:00:10,987 - INFO - Processed 133100000 reads so far
2011-05-20 10:00:14,316 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:46351858-66371858
2011-05-20 10:00:21,920 - INFO - Processed 133200000 reads so far
2011-05-20 10:00:32,256 - INFO - Processed 133300000 reads so far
2011-05-20 10:00:44,677 - INFO - Processed 133400000 reads so far
2011-05-20 10:00:56,637 - INFO - Processed 133500000 reads so far
2011-05-20 10:01:07,841 - INFO - Processed 133600000 reads so far
2011-05-20 10:01:19,609 - INFO - Processed 133700000 reads so far
2011-05-20 10:01:30,315 - INFO - Processed 133800000 reads so far
2011-05-20 10:01:41,692 - INFO - Processed 133900000 reads so far
2011-05-20 10:01:53,193 - INFO - Processed 134000000 reads so far
2011-05-20 10:02:02,600 - INFO - Processed 134100000 reads so far
2011-05-20 10:02:11,249 - INFO - Processed 134200000 reads so far
2011-05-20 10:02:18,067 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:66351869-86371869
2011-05-20 10:02:18,996 - INFO - Processed 134300000 reads so far
2011-05-20 10:02:28,361 - INFO - Processed 134400000 reads so far
2011-05-20 10:02:38,267 - INFO - Processed 134500000 reads so far
2011-05-20 10:02:46,401 - INFO - Processed 134600000 reads so far
2011-05-20 10:02:53,940 - INFO - Processed 134700000 reads so far
2011-05-20 10:03:04,740 - INFO - Processed 134800000 reads so far
2011-05-20 10:03:12,736 - INFO - Processed 134900000 reads so far
2011-05-20 10:03:19,366 - INFO - Processed 135000000 reads so far
2011-05-20 10:03:26,434 - INFO - Processed 135100000 reads so far
2011-05-20 10:03:34,055 - INFO - Processed 135200000 reads so far
2011-05-20 10:03:41,234 - INFO - Processed 135300000 reads so far
2011-05-20 10:03:49,608 - INFO - Processed 135400000 reads so far
2011-05-20 10:03:59,164 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:86351878-106371878
2011-05-20 10:04:00,062 - INFO - Processed 135500000 reads so far
2011-05-20 10:04:10,499 - INFO - Processed 135600000 reads so far
2011-05-20 10:04:20,701 - INFO - Processed 135700000 reads so far
2011-05-20 10:04:29,381 - INFO - Processed 135800000 reads so far
2011-05-20 10:04:37,886 - INFO - Processed 135900000 reads so far
2011-05-20 10:04:48,233 - INFO - Processed 136000000 reads so far
2011-05-20 10:04:56,489 - INFO - Processed 136100000 reads so far
2011-05-20 10:05:04,877 - INFO - Processed 136200000 reads so far
2011-05-20 10:05:12,870 - INFO - Processed 136300000 reads so far
2011-05-20 10:05:20,252 - INFO - Processed 136400000 reads so far
2011-05-20 10:05:29,268 - INFO - Processed 136500000 reads so far
2011-05-20 10:05:36,158 - INFO - Processed 136600000 reads so far
2011-05-20 10:05:41,882 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:106351889-126371889
2011-05-20 10:05:44,819 - INFO - Processed 136700000 reads so far
2011-05-20 10:05:52,606 - INFO - Processed 136800000 reads so far
2011-05-20 10:06:00,622 - INFO - Processed 136900000 reads so far
2011-05-20 10:06:08,659 - INFO - Processed 137000000 reads so far
2011-05-20 10:06:17,246 - INFO - Processed 137100000 reads so far
2011-05-20 10:06:26,734 - INFO - Processed 137200000 reads so far
2011-05-20 10:06:37,707 - INFO - Processed 137300000 reads so far
2011-05-20 10:06:45,194 - INFO - Processed 137400000 reads so far
2011-05-20 10:06:54,417 - INFO - Processed 137500000 reads so far
2011-05-20 10:07:02,991 - INFO - Processed 137600000 reads so far
2011-05-20 10:07:11,440 - INFO - Processed 137700000 reads so far
2011-05-20 10:07:19,983 - INFO - Processed 137800000 reads so far
2011-05-20 10:07:22,347 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:126351891-146371891
2011-05-20 10:07:27,687 - INFO - Processed 137900000 reads so far
2011-05-20 10:07:35,585 - INFO - Processed 138000000 reads so far
2011-05-20 10:07:47,276 - INFO - Processed 138100000 reads so far
2011-05-20 10:07:56,553 - INFO - Processed 138200000 reads so far
2011-05-20 10:08:04,324 - INFO - Processed 138300000 reads so far
2011-05-20 10:08:13,375 - INFO - Processed 138400000 reads so far
2011-05-20 10:08:22,646 - INFO - Processed 138500000 reads so far
2011-05-20 10:08:29,465 - INFO - Processed 138600000 reads so far
2011-05-20 10:08:37,149 - INFO - Processed 138700000 reads so far
2011-05-20 10:08:44,412 - INFO - Processed 138800000 reads so far
2011-05-20 10:08:53,934 - INFO - Processed 138900000 reads so far
2011-05-20 10:09:02,695 - INFO - Processed 139000000 reads so far
2011-05-20 10:09:06,247 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:146351933-166371933
2011-05-20 10:09:11,140 - INFO - Processed 139100000 reads so far
2011-05-20 10:09:22,179 - INFO - Processed 139200000 reads so far
2011-05-20 10:09:37,590 - INFO - Processed 139300000 reads so far
2011-05-20 10:09:45,613 - INFO - Processed 139400000 reads so far
2011-05-20 10:09:47,969 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7_random:0-20010067
2011-05-20 10:09:48,809 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:2990043-23010043
2011-05-20 10:09:55,588 - INFO - Processed 139500000 reads so far
2011-05-20 10:10:18,426 - INFO - Processed 139600000 reads so far
2011-05-20 10:10:26,446 - INFO - Processed 139700000 reads so far
2011-05-20 10:10:36,249 - INFO - Processed 139800000 reads so far
2011-05-20 10:10:55,979 - INFO - Processed 139900000 reads so far
2011-05-20 10:11:14,634 - INFO - Processed 140000000 reads so far
2011-05-20 10:11:27,395 - INFO - Processed 140100000 reads so far
2011-05-20 10:11:38,660 - INFO - Processed 140200000 reads so far
2011-05-20 10:11:51,637 - INFO - Processed 140300000 reads so far
2011-05-20 10:12:02,478 - INFO - Processed 140400000 reads so far
2011-05-20 10:12:12,673 - INFO - Processed 140500000 reads so far
2011-05-20 10:12:22,628 - INFO - Processed 140600000 reads so far
2011-05-20 10:12:25,634 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:22990059-43010059
2011-05-20 10:12:33,467 - INFO - Processed 140700000 reads so far
2011-05-20 10:12:44,322 - INFO - Processed 140800000 reads so far
2011-05-20 10:12:55,320 - INFO - Processed 140900000 reads so far
2011-05-20 10:13:05,801 - INFO - Processed 141000000 reads so far
2011-05-20 10:13:20,922 - INFO - Processed 141100000 reads so far
2011-05-20 10:13:32,950 - INFO - Processed 141200000 reads so far
2011-05-20 10:13:44,362 - INFO - Processed 141300000 reads so far
2011-05-20 10:13:54,042 - INFO - Processed 141400000 reads so far
2011-05-20 10:14:03,699 - INFO - Processed 141500000 reads so far
2011-05-20 10:14:14,313 - INFO - Processed 141600000 reads so far
2011-05-20 10:14:23,598 - INFO - Processed 141700000 reads so far
2011-05-20 10:14:32,098 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:42990075-63010075
2011-05-20 10:14:34,419 - INFO - Processed 141800000 reads so far
2011-05-20 10:14:45,651 - INFO - Processed 141900000 reads so far
2011-05-20 10:14:56,291 - INFO - Processed 142000000 reads so far
2011-05-20 10:15:04,860 - INFO - Processed 142100000 reads so far
2011-05-20 10:15:14,828 - INFO - Processed 142200000 reads so far
2011-05-20 10:15:24,473 - INFO - Processed 142300000 reads so far
2011-05-20 10:15:32,690 - INFO - Processed 142400000 reads so far
2011-05-20 10:15:42,173 - INFO - Processed 142500000 reads so far
2011-05-20 10:15:51,412 - INFO - Processed 142600000 reads so far
2011-05-20 10:16:00,103 - INFO - Processed 142700000 reads so far
2011-05-20 10:16:10,936 - INFO - Processed 142800000 reads so far
2011-05-20 10:16:12,342 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:62990079-83010079
2011-05-20 10:16:23,243 - INFO - Processed 142900000 reads so far
2011-05-20 10:16:33,451 - INFO - Processed 143000000 reads so far
2011-05-20 10:16:44,938 - INFO - Processed 143100000 reads so far
2011-05-20 10:16:52,682 - INFO - Processed 143200000 reads so far
2011-05-20 10:17:01,681 - INFO - Processed 143300000 reads so far
2011-05-20 10:17:12,333 - INFO - Processed 143400000 reads so far
2011-05-20 10:17:23,792 - INFO - Processed 143500000 reads so far
2011-05-20 10:17:35,443 - INFO - Processed 143600000 reads so far
2011-05-20 10:17:47,246 - INFO - Processed 143700000 reads so far
2011-05-20 10:17:58,324 - INFO - Processed 143800000 reads so far
2011-05-20 10:18:09,358 - INFO - Processed 143900000 reads so far
2011-05-20 10:18:17,561 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:82990115-103010115
2011-05-20 10:18:19,212 - INFO - Processed 144000000 reads so far
2011-05-20 10:18:33,920 - INFO - Processed 144100000 reads so far
2011-05-20 10:18:51,306 - INFO - Processed 144200000 reads so far
2011-05-20 10:18:59,288 - INFO - Processed 144300000 reads so far
2011-05-20 10:19:06,850 - INFO - Processed 144400000 reads so far
2011-05-20 10:19:13,979 - INFO - Processed 144500000 reads so far
2011-05-20 10:19:21,465 - INFO - Processed 144600000 reads so far
2011-05-20 10:19:32,403 - INFO - Processed 144700000 reads so far
2011-05-20 10:19:40,440 - INFO - Processed 144800000 reads so far
2011-05-20 10:19:48,459 - INFO - Processed 144900000 reads so far
2011-05-20 10:19:57,053 - INFO - Processed 145000000 reads so far
2011-05-20 10:20:05,503 - INFO - Processed 145100000 reads so far
2011-05-20 10:20:11,162 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:102990133-123010133
2011-05-20 10:20:14,701 - INFO - Processed 145200000 reads so far
2011-05-20 10:20:23,372 - INFO - Processed 145300000 reads so far
2011-05-20 10:20:30,978 - INFO - Processed 145400000 reads so far
2011-05-20 10:20:40,128 - INFO - Processed 145500000 reads so far
2011-05-20 10:20:48,382 - INFO - Processed 145600000 reads so far
2011-05-20 10:20:56,742 - INFO - Processed 145700000 reads so far
2011-05-20 10:21:05,888 - INFO - Processed 145800000 reads so far
2011-05-20 10:21:14,241 - INFO - Processed 145900000 reads so far
2011-05-20 10:21:22,754 - INFO - Processed 146000000 reads so far
2011-05-20 10:21:32,106 - INFO - Processed 146100000 reads so far
2011-05-20 10:21:42,531 - INFO - Processed 146200000 reads so far
2011-05-20 10:21:53,683 - INFO - Processed 146300000 reads so far
2011-05-20 10:21:57,383 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:122990145-143010145
2011-05-20 10:22:05,137 - INFO - Processed 146400000 reads so far
2011-05-20 10:22:22,535 - INFO - Processed 146500000 reads so far
2011-05-20 10:22:32,867 - INFO - Processed 146600000 reads so far
2011-05-20 10:22:43,320 - INFO - Processed 146700000 reads so far
2011-05-20 10:22:54,648 - INFO - Processed 146800000 reads so far
2011-05-20 10:23:03,885 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8_random:0-20010019
2011-05-20 10:23:05,471 - INFO - Processed 146900000 reads so far
2011-05-20 10:23:11,810 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:2989979-23009979
2011-05-20 10:23:14,668 - INFO - Processed 147000000 reads so far
2011-05-20 10:23:23,548 - INFO - Processed 147100000 reads so far
2011-05-20 10:23:30,960 - INFO - Processed 147200000 reads so far
2011-05-20 10:23:38,473 - INFO - Processed 147300000 reads so far
2011-05-20 10:23:47,042 - INFO - Processed 147400000 reads so far
2011-05-20 10:23:53,909 - INFO - Processed 147500000 reads so far
2011-05-20 10:24:04,604 - INFO - Processed 147600000 reads so far
2011-05-20 10:24:12,275 - INFO - Processed 147700000 reads so far
2011-05-20 10:24:20,321 - INFO - Processed 147800000 reads so far
2011-05-20 10:24:27,651 - INFO - Processed 147900000 reads so far
2011-05-20 10:24:35,986 - INFO - Processed 148000000 reads so far
2011-05-20 10:24:45,694 - INFO - Processed 148100000 reads so far
2011-05-20 10:24:53,136 - INFO - Processed 148200000 reads so far
2011-05-20 10:25:01,523 - INFO - Processed 148300000 reads so far
2011-05-20 10:25:10,013 - INFO - Processed 148400000 reads so far
2011-05-20 10:25:17,034 - INFO - Processed 148500000 reads so far
2011-05-20 10:25:24,326 - INFO - Processed 148600000 reads so far
2011-05-20 10:25:32,756 - INFO - Processed 148700000 reads so far
2011-05-20 10:25:38,627 - INFO - Processed 148800000 reads so far
2011-05-20 10:25:47,409 - INFO - Processed 148900000 reads so far
2011-05-20 10:25:56,795 - INFO - Processed 149000000 reads so far
2011-05-20 10:26:06,463 - INFO - Processed 149100000 reads so far
2011-05-20 10:26:16,060 - INFO - Processed 149200000 reads so far
2011-05-20 10:26:26,828 - INFO - Processed 149300000 reads so far
2011-05-20 10:26:33,842 - INFO - Processed 149400000 reads so far
2011-05-20 10:26:42,630 - INFO - Processed 149500000 reads so far
2011-05-20 10:26:51,701 - INFO - Processed 149600000 reads so far
2011-05-20 10:27:03,152 - INFO - Processed 149700000 reads so far
2011-05-20 10:27:10,718 - INFO - Processed 149800000 reads so far
2011-05-20 10:27:18,966 - INFO - Processed 149900000 reads so far
2011-05-20 10:27:27,597 - INFO - Processed 150000000 reads so far
2011-05-20 10:27:37,176 - INFO - Processed 150100000 reads so far
2011-05-20 10:27:45,010 - INFO - Processed 150200000 reads so far
2011-05-20 10:27:54,314 - INFO - Processed 150300000 reads so far
2011-05-20 10:28:02,036 - INFO - Processed 150400000 reads so far
2011-05-20 10:28:11,475 - INFO - Processed 150500000 reads so far
2011-05-20 10:28:19,392 - INFO - Processed 150600000 reads so far
2011-05-20 10:28:28,306 - INFO - Processed 150700000 reads so far
2011-05-20 10:28:36,766 - INFO - Processed 150800000 reads so far
2011-05-20 10:28:42,412 - INFO - Processed 150900000 reads so far
2011-05-20 10:28:53,253 - INFO - Processed 151000000 reads so far
2011-05-20 10:29:04,900 - INFO - Processed 151100000 reads so far
2011-05-20 10:29:12,995 - INFO - Processed 151200000 reads so far
2011-05-20 10:29:19,204 - INFO - Processed 151300000 reads so far
2011-05-20 10:29:24,956 - INFO - Processed 151400000 reads so far
2011-05-20 10:29:33,493 - INFO - Processed 151500000 reads so far
2011-05-20 10:29:40,897 - INFO - Processed 151600000 reads so far
2011-05-20 10:29:49,351 - INFO - Processed 151700000 reads so far
2011-05-20 10:29:56,093 - INFO - Processed 151800000 reads so far
2011-05-20 10:30:03,418 - INFO - Processed 151900000 reads so far
2011-05-20 10:30:11,486 - INFO - Processed 152000000 reads so far
2011-05-20 10:30:19,094 - INFO - Processed 152100000 reads so far
2011-05-20 10:30:28,120 - INFO - Processed 152200000 reads so far
2011-05-20 10:30:36,585 - INFO - Processed 152300000 reads so far
2011-05-20 10:30:45,052 - INFO - Processed 152400000 reads so far
2011-05-20 10:30:55,138 - INFO - Processed 152500000 reads so far
2011-05-20 10:31:02,032 - INFO - Processed 152600000 reads so far
2011-05-20 10:31:09,215 - INFO - Processed 152700000 reads so far
2011-05-20 10:31:20,896 - INFO - Processed 152800000 reads so far
2011-05-20 10:31:30,537 - INFO - Processed 152900000 reads so far
2011-05-20 10:31:42,426 - INFO - Processed 153000000 reads so far
2011-05-20 10:31:53,546 - INFO - Processed 153100000 reads so far
2011-05-20 10:32:05,854 - INFO - Processed 153200000 reads so far
2011-05-20 10:32:14,549 - INFO - Processed 153300000 reads so far
2011-05-20 10:32:24,625 - INFO - Processed 153400000 reads so far
2011-05-20 10:32:32,533 - INFO - Processed 153500000 reads so far
2011-05-20 10:32:43,389 - INFO - Processed 153600000 reads so far
2011-05-20 10:32:51,533 - INFO - Processed 153700000 reads so far
2011-05-20 10:33:00,543 - INFO - Processed 153800000 reads so far
2011-05-20 10:33:09,511 - INFO - Processed 153900000 reads so far
2011-05-20 10:33:17,740 - INFO - Processed 154000000 reads so far
2011-05-20 10:33:28,081 - INFO - Processed 154100000 reads so far
2011-05-20 10:33:37,006 - INFO - Processed 154200000 reads so far
2011-05-20 10:33:47,625 - INFO - Processed 154300000 reads so far
2011-05-20 10:33:55,902 - INFO - Processed 154400000 reads so far
2011-05-20 10:34:01,597 - INFO - Processed 154500000 reads so far
2011-05-20 10:34:08,030 - INFO - Processed 154600000 reads so far
2011-05-20 10:34:13,995 - INFO - Processed 154700000 reads so far
2011-05-20 10:34:21,273 - INFO - Processed 154800000 reads so far
2011-05-20 10:34:27,393 - INFO - Processed 154900000 reads so far
2011-05-20 10:34:37,235 - INFO - Processed 155000000 reads so far
2011-05-20 10:34:45,338 - INFO - Processed 155100000 reads so far
2011-05-20 10:34:51,701 - INFO - Processed 155200000 reads so far
2011-05-20 10:35:01,587 - INFO - Processed 155300000 reads so far
2011-05-20 10:35:08,453 - INFO - Processed 155400000 reads so far
2011-05-20 10:35:14,819 - INFO - Processed 155500000 reads so far
2011-05-20 10:35:21,695 - INFO - Processed 155600000 reads so far
2011-05-20 10:35:28,740 - INFO - Processed 155700000 reads so far
2011-05-20 10:35:37,300 - INFO - Processed 155800000 reads so far
2011-05-20 10:35:48,701 - INFO - Processed 155900000 reads so far
2011-05-20 10:35:56,824 - INFO - Processed 156000000 reads so far
2011-05-20 10:36:05,354 - INFO - Processed 156100000 reads so far
2011-05-20 10:36:13,217 - INFO - Processed 156200000 reads so far
2011-05-20 10:36:21,427 - INFO - Processed 156300000 reads so far
2011-05-20 10:36:31,579 - INFO - Processed 156400000 reads so far
2011-05-20 10:36:41,999 - INFO - Processed 156500000 reads so far
2011-05-20 10:36:51,665 - INFO - Processed 156600000 reads so far
2011-05-20 10:37:01,210 - INFO - Processed 156700000 reads so far
2011-05-20 10:37:03,782 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:22989997-43009997
2011-05-20 10:37:10,341 - INFO - Processed 156800000 reads so far
2011-05-20 10:37:20,179 - INFO - Processed 156900000 reads so far
2011-05-20 10:37:28,609 - INFO - Processed 157000000 reads so far
2011-05-20 10:37:36,885 - INFO - Processed 157100000 reads so far
2011-05-20 10:37:46,583 - INFO - Processed 157200000 reads so far
2011-05-20 10:37:54,157 - INFO - Processed 157300000 reads so far
2011-05-20 10:38:04,548 - INFO - Processed 157400000 reads so far
2011-05-20 10:38:13,493 - INFO - Processed 157500000 reads so far
2011-05-20 10:38:21,911 - INFO - Processed 157600000 reads so far
2011-05-20 10:38:32,248 - INFO - Processed 157700000 reads so far
2011-05-20 10:38:41,682 - INFO - Processed 157800000 reads so far
2011-05-20 10:38:52,070 - INFO - Processed 157900000 reads so far
2011-05-20 10:39:04,777 - INFO - Processed 158000000 reads so far
2011-05-20 10:39:16,035 - INFO - Processed 158100000 reads so far
2011-05-20 10:39:18,421 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:42990000-63010000
2011-05-20 10:39:27,393 - INFO - Processed 158200000 reads so far
2011-05-20 10:39:39,366 - INFO - Processed 158300000 reads so far
2011-05-20 10:39:51,473 - INFO - Processed 158400000 reads so far
2011-05-20 10:40:02,400 - INFO - Processed 158500000 reads so far
2011-05-20 10:40:13,013 - INFO - Processed 158600000 reads so far
2011-05-20 10:40:26,647 - INFO - Processed 158700000 reads so far
2011-05-20 10:40:34,410 - INFO - Processed 158800000 reads so far
2011-05-20 10:40:43,112 - INFO - Processed 158900000 reads so far
2011-05-20 10:40:52,390 - INFO - Processed 159000000 reads so far
2011-05-20 10:41:02,777 - INFO - Processed 159100000 reads so far
2011-05-20 10:41:14,010 - INFO - Processed 159200000 reads so far
2011-05-20 10:41:25,736 - INFO - Processed 159300000 reads so far
2011-05-20 10:41:28,696 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:62990025-83010025
2011-05-20 10:41:36,614 - INFO - Processed 159400000 reads so far
2011-05-20 10:41:47,659 - INFO - Processed 159500000 reads so far
2011-05-20 10:41:59,741 - INFO - Processed 159600000 reads so far
2011-05-20 10:42:10,305 - INFO - Processed 159700000 reads so far
2011-05-20 10:42:20,027 - INFO - Processed 159800000 reads so far
2011-05-20 10:42:31,365 - INFO - Processed 159900000 reads so far
2011-05-20 10:42:42,436 - INFO - Processed 160000000 reads so far
2011-05-20 10:42:55,414 - INFO - Processed 160100000 reads so far
2011-05-20 10:43:06,410 - INFO - Processed 160200000 reads so far
2011-05-20 10:43:17,266 - INFO - Processed 160300000 reads so far
2011-05-20 10:43:28,893 - INFO - Processed 160400000 reads so far
2011-05-20 10:43:39,929 - INFO - Processed 160500000 reads so far
2011-05-20 10:43:40,432 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:82990031-103010031
2011-05-20 10:43:52,376 - INFO - Processed 160600000 reads so far
2011-05-20 10:44:04,906 - INFO - Processed 160700000 reads so far
2011-05-20 10:44:15,944 - INFO - Processed 160800000 reads so far
2011-05-20 10:44:26,919 - INFO - Processed 160900000 reads so far
2011-05-20 10:44:38,002 - INFO - Processed 161000000 reads so far
2011-05-20 10:44:49,016 - INFO - Processed 161100000 reads so far
2011-05-20 10:44:57,127 - INFO - Processed 161200000 reads so far
2011-05-20 10:45:08,111 - INFO - Processed 161300000 reads so far
2011-05-20 10:45:19,858 - INFO - Processed 161400000 reads so far
2011-05-20 10:45:30,989 - INFO - Processed 161500000 reads so far
2011-05-20 10:45:42,010 - INFO - Processed 161600000 reads so far
2011-05-20 10:45:49,264 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:102990121-123010121
2011-05-20 10:45:52,717 - INFO - Processed 161700000 reads so far
2011-05-20 10:46:03,712 - INFO - Processed 161800000 reads so far
2011-05-20 10:46:14,462 - INFO - Processed 161900000 reads so far
2011-05-20 10:46:23,699 - INFO - Processed 162000000 reads so far
2011-05-20 10:46:34,274 - INFO - Processed 162100000 reads so far
2011-05-20 10:46:46,205 - INFO - Processed 162200000 reads so far
2011-05-20 10:46:58,801 - INFO - Processed 162300000 reads so far
2011-05-20 10:47:08,774 - INFO - Processed 162400000 reads so far
2011-05-20 10:47:17,689 - INFO - Processed 162500000 reads so far
2011-05-20 10:47:25,945 - INFO - Processed 162600000 reads so far
2011-05-20 10:47:33,597 - INFO - Processed 162700000 reads so far
2011-05-20 10:47:41,214 - INFO - Processed 162800000 reads so far
2011-05-20 10:47:48,324 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:122990125-143010125
2011-05-20 10:47:49,495 - INFO - Processed 162900000 reads so far
2011-05-20 10:47:54,348 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9_random:0-20010014
2011-05-20 10:47:58,344 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrM:0-20010000
2011-05-20 10:47:59,048 - INFO - Processed 163000000 reads so far
2011-05-20 10:48:04,036 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrUn_random:0-20010091
2011-05-20 10:48:06,098 - INFO - Processed 163100000 reads so far
2011-05-20 10:48:14,584 - INFO - Processed 163200000 reads so far
2011-05-20 10:48:22,019 - INFO - Processed 163300000 reads so far
2011-05-20 10:48:30,100 - INFO - Processed 163400000 reads so far
2011-05-20 10:48:37,176 - INFO - Processed 163500000 reads so far
2011-05-20 10:48:39,732 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:2990181-23010181
2011-05-20 10:48:44,297 - INFO - Processed 163600000 reads so far
2011-05-20 10:48:54,024 - INFO - Processed 163700000 reads so far
2011-05-20 10:49:03,969 - INFO - Processed 163800000 reads so far
2011-05-20 10:49:15,758 - INFO - Processed 163900000 reads so far
2011-05-20 10:49:24,603 - INFO - Processed 164000000 reads so far
2011-05-20 10:49:33,584 - INFO - Processed 164100000 reads so far
2011-05-20 10:49:39,753 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:22990182-43010182
2011-05-20 10:49:41,267 - INFO - Processed 164200000 reads so far
2011-05-20 10:49:48,881 - INFO - Processed 164300000 reads so far
2011-05-20 10:49:58,642 - INFO - Processed 164400000 reads so far
2011-05-20 10:50:07,317 - INFO - Processed 164500000 reads so far
2011-05-20 10:50:14,916 - INFO - Processed 164600000 reads so far
2011-05-20 10:50:24,192 - INFO - Processed 164700000 reads so far
2011-05-20 10:50:32,080 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:42990232-63010232
2011-05-20 10:50:34,089 - INFO - Processed 164800000 reads so far
2011-05-20 10:50:42,387 - INFO - Processed 164900000 reads so far
2011-05-20 10:50:52,627 - INFO - Processed 165000000 reads so far
2011-05-20 10:51:01,721 - INFO - Processed 165100000 reads so far
2011-05-20 10:51:12,155 - INFO - Processed 165200000 reads so far
2011-05-20 10:51:20,021 - INFO - Processed 165300000 reads so far
2011-05-20 10:51:28,356 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:62990262-83010262
2011-05-20 10:51:30,879 - INFO - Processed 165400000 reads so far
2011-05-20 10:51:40,380 - INFO - Processed 165500000 reads so far
2011-05-20 10:51:50,499 - INFO - Processed 165600000 reads so far
2011-05-20 10:52:01,382 - INFO - Processed 165700000 reads so far
2011-05-20 10:52:09,417 - INFO - Processed 165800000 reads so far
2011-05-20 10:52:18,777 - INFO - Processed 165900000 reads so far
2011-05-20 10:52:28,111 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:82990283-103010283
2011-05-20 10:52:29,723 - INFO - Processed 166000000 reads so far
2011-05-20 10:52:38,452 - INFO - Processed 166100000 reads so far
2011-05-20 10:52:48,771 - INFO - Processed 166200000 reads so far
2011-05-20 10:52:57,918 - INFO - Processed 166300000 reads so far
2011-05-20 10:53:07,165 - INFO - Processed 166400000 reads so far
2011-05-20 10:53:14,763 - INFO - Processed 166500000 reads so far
2011-05-20 10:53:20,903 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:102990355-123010355
2011-05-20 10:53:24,356 - INFO - Processed 166600000 reads so far
2011-05-20 10:53:32,610 - INFO - Processed 166700000 reads so far
2011-05-20 10:53:43,632 - INFO - Processed 166800000 reads so far
2011-05-20 10:53:52,973 - INFO - Processed 166900000 reads so far
2011-05-20 10:54:02,458 - INFO - Processed 167000000 reads so far
2011-05-20 10:54:10,413 - INFO - Processed 167100000 reads so far
2011-05-20 10:54:19,031 - INFO - Processed 167200000 reads so far
2011-05-20 10:54:24,891 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:122990369-143010369
2011-05-20 10:54:26,513 - INFO - Processed 167300000 reads so far
2011-05-20 10:54:34,249 - INFO - Processed 167400000 reads so far
2011-05-20 10:54:43,946 - INFO - Processed 167500000 reads so far
2011-05-20 10:54:55,015 - INFO - Processed 167600000 reads so far
2011-05-20 10:55:03,296 - INFO - Processed 167700000 reads so far
2011-05-20 10:55:13,113 - INFO - Processed 167800000 reads so far
2011-05-20 10:55:20,825 - INFO - Processed 167900000 reads so far
2011-05-20 10:55:24,979 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:142990449-163010449
2011-05-20 10:55:31,327 - INFO - Processed 168000000 reads so far
2011-05-20 10:55:43,180 - INFO - Processed 168100000 reads so far
2011-05-20 10:55:50,533 - INFO - Processed 168200000 reads so far
2011-05-20 10:55:58,646 - INFO - Processed 168300000 reads so far
2011-05-20 10:56:07,437 - INFO - Processed 168400000 reads so far
2011-05-20 10:56:16,421 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:162990502-183010502
2011-05-20 10:56:16,462 - INFO - Processed 168500000 reads so far
2011-05-20 10:56:23,603 - INFO - Processed 168600000 reads so far
2011-05-20 10:56:31,101 - INFO - Processed 168700000 reads so far
2011-05-20 10:56:32,488 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX_random:0-20010000
2011-05-20 10:56:34,839 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrY:0-20010018
2011-05-20 10:56:37,809 - INFO - Processed 168800000 reads so far
2011-05-20 10:56:43,156 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrY_random:0-20011016
2011-05-20 10:56:46,166 - INFO - Processed 168900000 reads so far
2011-05-20 10:56:54,973 - INFO - Processed 169000000 reads so far
2011-05-20 10:57:02,079 - INFO - Processed 169100000 reads so far
2011-05-20 10:57:10,894 - INFO - Processed 169200000 reads so far
2011-05-20 10:57:20,437 - INFO - Processed 169300000 reads so far
2011-05-20 10:57:28,343 - INFO - Processed 169400000 reads so far
2011-05-20 10:57:35,227 - INFO - Processed 169500000 reads so far
2011-05-20 10:57:42,551 - INFO - Processed 169600000 reads so far
2011-05-20 10:57:49,450 - INFO - Processed 169700000 reads so far
2011-05-20 10:57:57,988 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrY_random:19991032-40011032
2011-05-20 10:58:00,421 - INFO - Processed 169800000 reads so far
2011-05-20 10:58:08,133 - INFO - Processed 169900000 reads so far
2011-05-20 10:58:18,269 - INFO - Processed 170000000 reads so far
2011-05-20 10:58:26,659 - INFO - Processed 170100000 reads so far
2011-05-20 10:58:36,596 - INFO - Processed 170200000 reads so far
2011-05-20 10:58:43,919 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrY_random:39991066-60011066
2011-05-20 10:58:45,360 - INFO - Processed 170300000 reads so far
2011-05-20 10:58:52,063 - INFO - Processed 170400000 reads so far
2011-05-20 10:59:00,294 - INFO - Processed 170500000 reads so far
2011-05-20 10:59:10,054 - INFO - Processed 170600000 reads so far
2011-05-20 10:59:17,390 - INFO - Processed 170700000 reads so far
2011-05-20 10:59:25,381 - INFO - Processed 170800000 reads so far
2011-05-20 10:59:31,731 - INFO - Processed 170900000 reads so far
2011-05-20 10:59:38,135 - INFO - Processed 171000000 reads so far
2011-05-20 10:59:41,851 - INFO - Processed 171100000 reads so far
2011-05-20 10:59:45,384 - INFO - Processed 171200000 reads so far
2011-05-20 10:59:49,146 - INFO - Processed 171300000 reads so far
2011-05-20 10:59:51,711 - INFO - Processed 171400000 reads so far
2011-05-20 10:59:55,580 - INFO - Processed 171500000 reads so far
2011-05-20 10:59:59,712 - INFO - Processed 171600000 reads so far
2011-05-20 11:00:04,837 - INFO - Processed 171700000 reads so far
2011-05-20 11:00:08,751 - INFO - Processed 171800000 reads so far
2011-05-20 11:00:11,891 - INFO - Processed 171900000 reads so far
2011-05-20 11:00:14,322 - INFO - Processed 172000000 reads so far
2011-05-20 11:00:17,585 - INFO - Processed 172100000 reads so far
2011-05-20 11:00:22,150 - INFO - Processed 172200000 reads so far
2011-05-20 11:00:26,440 - INFO - Processed 172300000 reads so far
2011-05-20 11:00:30,880 - INFO - Processed 172400000 reads so far
2011-05-20 11:00:35,629 - INFO - Processed 172500000 reads so far
2011-05-20 11:00:41,024 - INFO - Processed 172600000 reads so far
2011-05-20 11:00:45,385 - INFO - Processed 172700000 reads so far
2011-05-20 11:00:49,744 - INFO - Processed 172800000 reads so far
2011-05-20 11:00:54,104 - INFO - Processed 172900000 reads so far
2011-05-20 11:00:58,427 - INFO - Processed 173000000 reads so far
2011-05-20 11:01:01,987 - INFO - Processed 173100000 reads so far
2011-05-20 11:01:05,264 - INFO - Processed 173200000 reads so far
2011-05-20 11:01:09,219 - INFO - Processed 173300000 reads so far
2011-05-20 11:01:13,207 - INFO - Processed 173400000 reads so far
2011-05-20 11:01:15,323 - INFO - Finished loading data. Outputting QC metrics
2011-05-20 11:01:45,817 - INFO - Finished outputting QC metrics
2011-05-20 11:01:46,000 - INFO - Finished generating QC metrics