2011-05-20 11:57:36,803 - INFO - Generating QC metrics for BAM File ['WTCHG_12348.bam']
2011-05-20 11:57:36,803 - INFO - Output will go to WTCHG_12348.qc.txt.tmp
2011-05-20 11:57:36,803 - INFO - Reading GC Map from file /data/Genomes/gcMap/Mouse37.gcMap.gz
2011-05-20 12:00:17,760 - INFO - Finished reading GC Map
2011-05-20 12:00:17,787 - INFO - Reading CDS from exon definition file /data/Genomes/annotation/Mouse37.refGene.txt.gz
2011-05-20 12:00:20,934 - INFO - Read 382138 exons (33804740 nucleotides) for 32 chromosomes
2011-05-20 12:00:20,935 - INFO - Computing coverage cut-off
2011-05-20 12:00:20,935 - INFO - Retrieving BAM file coverage info from samtools pileup
2011-05-20 12:00:26,399 - INFO - Processed 1000000 pile-up sites
2011-05-20 12:00:31,871 - INFO - Processed 2000000 pile-up sites
2011-05-20 12:00:36,558 - INFO - Processed 3000000 pile-up sites
2011-05-20 12:00:41,334 - INFO - Processed 4000000 pile-up sites
2011-05-20 12:00:46,560 - INFO - Processed 5000000 pile-up sites
2011-05-20 12:00:51,651 - INFO - Processed 6000000 pile-up sites
2011-05-20 12:00:56,751 - INFO - Processed 7000000 pile-up sites
2011-05-20 12:01:01,856 - INFO - Processed 8000000 pile-up sites
2011-05-20 12:01:06,905 - INFO - Processed 9000000 pile-up sites
2011-05-20 12:01:11,701 - INFO - Processed 10000000 pile-up sites
2011-05-20 12:01:16,907 - INFO - Processed 11000000 pile-up sites
2011-05-20 12:01:22,864 - INFO - Processed 12000000 pile-up sites
2011-05-20 12:01:27,752 - INFO - Processed 13000000 pile-up sites
2011-05-20 12:01:33,505 - INFO - Processed 14000000 pile-up sites
2011-05-20 12:01:38,916 - INFO - Processed 15000000 pile-up sites
2011-05-20 12:01:44,344 - INFO - Processed 16000000 pile-up sites
2011-05-20 12:01:52,097 - INFO - Processed 17000000 pile-up sites
2011-05-20 12:01:57,419 - INFO - Processed 18000000 pile-up sites
2011-05-20 12:02:02,336 - INFO - Processed 19000000 pile-up sites
2011-05-20 12:02:07,712 - INFO - Processed 20000000 pile-up sites
2011-05-20 12:02:12,921 - INFO - Processed 21000000 pile-up sites
2011-05-20 12:02:17,989 - INFO - Processed 22000000 pile-up sites
2011-05-20 12:02:23,170 - INFO - Processed 23000000 pile-up sites
2011-05-20 12:02:28,012 - INFO - Processed 24000000 pile-up sites
2011-05-20 12:02:33,373 - INFO - Processed 25000000 pile-up sites
2011-05-20 12:02:38,788 - INFO - Processed 26000000 pile-up sites
2011-05-20 12:02:43,820 - INFO - Processed 27000000 pile-up sites
2011-05-20 12:02:49,170 - INFO - Processed 28000000 pile-up sites
2011-05-20 12:02:54,793 - INFO - Processed 29000000 pile-up sites
2011-05-20 12:03:02,597 - INFO - Processed 30000000 pile-up sites
2011-05-20 12:03:08,150 - INFO - Processed 31000000 pile-up sites
2011-05-20 12:03:12,870 - INFO - Processed 32000000 pile-up sites
2011-05-20 12:03:17,630 - INFO - Processed 33000000 pile-up sites
2011-05-20 12:03:22,768 - INFO - Processed 34000000 pile-up sites
2011-05-20 12:03:28,521 - INFO - Processed 35000000 pile-up sites
2011-05-20 12:03:33,381 - INFO - Processed 36000000 pile-up sites
2011-05-20 12:03:39,461 - INFO - Processed 37000000 pile-up sites
2011-05-20 12:03:46,052 - INFO - Processed 38000000 pile-up sites
2011-05-20 12:03:48,394 - INFO - Finished processing pile-up on 38354723 sites (200000001 nucleotides)
2011-05-20 12:03:48,394 - INFO - Coverage cut-off value is 19
2011-05-20 12:03:48,394 - INFO - Loading data into QC data manager
2011-05-20 12:03:48,549 - WARNING - Found RG tag 'SM' (value: 334) duplicated in CO field (value: 040/11) -- ignoring CO value
2011-05-20 12:03:48,550 - WARNING - Found RG tag 'ID' (value: WTCHG_12348) duplicated in CO field (value: 040/11) -- ignoring CO value
2011-05-20 12:03:48,550 - WARNING - Found RG tag 'SM' (value: 334) duplicated in CO field (value: 040/11) -- ignoring CO value
2011-05-20 12:03:48,550 - WARNING - Found RG tag 'ID' (value: WTCHG_12348) duplicated in CO field (value: 040/11) -- ignoring CO value
2011-05-20 12:03:48,550 - WARNING - Found RG tag 'SM' (value: 334) duplicated in CO field (value: 040/11) -- ignoring CO value
2011-05-20 12:03:48,550 - WARNING - Found RG tag 'ID' (value: WTCHG_12348) duplicated in CO field (value: 040/11) -- ignoring CO value
2011-05-20 12:03:48,550 - WARNING - Found RG tag 'SM' (value: 334) duplicated in CO field (value: 040/11) -- ignoring CO value
2011-05-20 12:03:48,550 - WARNING - Found RG tag 'ID' (value: WTCHG_12348) duplicated in CO field (value: 040/11) -- ignoring CO value
2011-05-20 12:03:48,607 - WARNING - Found RG tag 'SM' (value: 334) duplicated in CO field (value: 040/11) -- ignoring CO value
2011-05-20 12:03:48,607 - WARNING - Found RG tag 'ID' (value: WTCHG_12348) duplicated in CO field (value: 040/11) -- ignoring CO value
2011-05-20 12:03:48,607 - WARNING - Found RG tag 'SM' (value: 334) duplicated in CO field (value: 040/11) -- ignoring CO value
2011-05-20 12:03:48,607 - WARNING - Found RG tag 'ID' (value: WTCHG_12348) duplicated in CO field (value: 040/11) -- ignoring CO value
2011-05-20 12:03:48,608 - WARNING - Found RG tag 'SM' (value: 334) duplicated in CO field (value: 040/11) -- ignoring CO value
2011-05-20 12:03:48,608 - WARNING - Found RG tag 'ID' (value: WTCHG_12348) duplicated in CO field (value: 040/11) -- ignoring CO value
2011-05-20 12:03:48,608 - WARNING - Found RG tag 'SM' (value: 334) duplicated in CO field (value: 040/11) -- ignoring CO value
2011-05-20 12:03:48,608 - WARNING - Found RG tag 'ID' (value: WTCHG_12348) duplicated in CO field (value: 040/11) -- ignoring CO value
2011-05-20 12:03:48,619 - INFO - Reading data from BAM file WTCHG_12348.bam. All reads in file will be read
2011-05-20 12:03:48,664 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:2989999-23009999
2011-05-20 12:04:03,807 - INFO - Processed 100000 reads so far
2011-05-20 12:04:16,274 - INFO - Processed 200000 reads so far
2011-05-20 12:04:28,047 - INFO - Processed 300000 reads so far
2011-05-20 12:04:39,692 - INFO - Processed 400000 reads so far
2011-05-20 12:04:52,062 - INFO - Processed 500000 reads so far
2011-05-20 12:05:03,567 - INFO - Processed 600000 reads so far
2011-05-20 12:05:13,848 - INFO - Processed 700000 reads so far
2011-05-20 12:05:23,150 - INFO - Processed 800000 reads so far
2011-05-20 12:05:32,910 - INFO - Processed 900000 reads so far
2011-05-20 12:05:43,413 - INFO - Processed 1000000 reads so far
2011-05-20 12:05:44,595 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:22990009-43010009
2011-05-20 12:05:54,985 - INFO - Processed 1100000 reads so far
2011-05-20 12:06:04,894 - INFO - Processed 1200000 reads so far
2011-05-20 12:06:15,653 - INFO - Processed 1300000 reads so far
2011-05-20 12:06:25,337 - INFO - Processed 1400000 reads so far
2011-05-20 12:06:34,526 - INFO - Processed 1500000 reads so far
2011-05-20 12:06:44,914 - INFO - Processed 1600000 reads so far
2011-05-20 12:06:54,750 - INFO - Processed 1700000 reads so far
2011-05-20 12:07:04,457 - INFO - Processed 1800000 reads so far
2011-05-20 12:07:14,177 - INFO - Processed 1900000 reads so far
2011-05-20 12:07:24,010 - INFO - Processed 2000000 reads so far
2011-05-20 12:07:26,051 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:42990024-63010024
2011-05-20 12:07:36,023 - INFO - Processed 2100000 reads so far
2011-05-20 12:07:49,123 - INFO - Processed 2200000 reads so far
2011-05-20 12:08:01,868 - INFO - Processed 2300000 reads so far
2011-05-20 12:08:13,725 - INFO - Processed 2400000 reads so far
2011-05-20 12:08:25,180 - INFO - Processed 2500000 reads so far
2011-05-20 12:08:37,596 - INFO - Processed 2600000 reads so far
2011-05-20 12:08:48,623 - INFO - Processed 2700000 reads so far
2011-05-20 12:08:59,427 - INFO - Processed 2800000 reads so far
2011-05-20 12:09:12,439 - INFO - Processed 2900000 reads so far
2011-05-20 12:09:23,819 - INFO - Processed 3000000 reads so far
2011-05-20 12:09:27,442 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:62990039-83010039
2011-05-20 12:09:36,849 - INFO - Processed 3100000 reads so far
2011-05-20 12:09:49,472 - INFO - Processed 3200000 reads so far
2011-05-20 12:10:01,798 - INFO - Processed 3300000 reads so far
2011-05-20 12:10:13,985 - INFO - Processed 3400000 reads so far
2011-05-20 12:10:26,179 - INFO - Processed 3500000 reads so far
2011-05-20 12:10:39,177 - INFO - Processed 3600000 reads so far
2011-05-20 12:10:56,131 - INFO - Processed 3700000 reads so far
2011-05-20 12:11:17,017 - INFO - Processed 3800000 reads so far
2011-05-20 12:11:31,275 - INFO - Processed 3900000 reads so far
2011-05-20 12:11:55,310 - INFO - Processed 4000000 reads so far
2011-05-20 12:12:04,786 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:82990061-103010061
2011-05-20 12:12:09,125 - INFO - Processed 4100000 reads so far
2011-05-20 12:12:27,431 - INFO - Processed 4200000 reads so far
2011-05-20 12:12:39,896 - INFO - Processed 4300000 reads so far
2011-05-20 12:12:52,213 - INFO - Processed 4400000 reads so far
2011-05-20 12:13:06,994 - INFO - Processed 4500000 reads so far
2011-05-20 12:13:23,664 - INFO - Processed 4600000 reads so far
2011-05-20 12:13:36,801 - INFO - Processed 4700000 reads so far
2011-05-20 12:13:56,401 - INFO - Processed 4800000 reads so far
2011-05-20 12:14:08,182 - INFO - Processed 4900000 reads so far
2011-05-20 12:14:19,941 - INFO - Processed 5000000 reads so far
2011-05-20 12:14:33,424 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:102990236-123010236
2011-05-20 12:14:35,441 - INFO - Processed 5100000 reads so far
2011-05-20 12:14:48,752 - INFO - Processed 5200000 reads so far
2011-05-20 12:15:07,186 - INFO - Processed 5300000 reads so far
2011-05-20 12:15:21,127 - INFO - Processed 5400000 reads so far
2011-05-20 12:15:33,115 - INFO - Processed 5500000 reads so far
2011-05-20 12:15:47,943 - INFO - Processed 5600000 reads so far
2011-05-20 12:15:59,169 - INFO - Processed 5700000 reads so far
2011-05-20 12:16:10,132 - INFO - Processed 5800000 reads so far
2011-05-20 12:16:21,779 - INFO - Processed 5900000 reads so far
2011-05-20 12:16:35,036 - INFO - Processed 6000000 reads so far
2011-05-20 12:16:43,121 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:122990277-143010277
2011-05-20 12:16:48,471 - INFO - Processed 6100000 reads so far
2011-05-20 12:16:59,259 - INFO - Processed 6200000 reads so far
2011-05-20 12:17:10,574 - INFO - Processed 6300000 reads so far
2011-05-20 12:17:22,180 - INFO - Processed 6400000 reads so far
2011-05-20 12:17:24,665 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:2990009-23010009
2011-05-20 12:17:33,449 - INFO - Processed 6500000 reads so far
2011-05-20 12:17:43,123 - INFO - Processed 6600000 reads so far
2011-05-20 12:17:54,290 - INFO - Processed 6700000 reads so far
2011-05-20 12:18:08,722 - INFO - Processed 6800000 reads so far
2011-05-20 12:18:19,469 - INFO - Processed 6900000 reads so far
2011-05-20 12:18:31,965 - INFO - Processed 7000000 reads so far
2011-05-20 12:18:41,853 - INFO - Processed 7100000 reads so far
2011-05-20 12:18:51,909 - INFO - Processed 7200000 reads so far
2011-05-20 12:19:01,706 - INFO - Processed 7300000 reads so far
2011-05-20 12:19:11,174 - INFO - Processed 7400000 reads so far
2011-05-20 12:19:21,244 - INFO - Processed 7500000 reads so far
2011-05-20 12:19:31,321 - INFO - Processed 7600000 reads so far
2011-05-20 12:19:32,325 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:22990017-43010017
2011-05-20 12:19:42,384 - INFO - Processed 7700000 reads so far
2011-05-20 12:19:53,854 - INFO - Processed 7800000 reads so far
2011-05-20 12:20:06,178 - INFO - Processed 7900000 reads so far
2011-05-20 12:20:20,013 - INFO - Processed 8000000 reads so far
2011-05-20 12:20:33,712 - INFO - Processed 8100000 reads so far
2011-05-20 12:20:45,342 - INFO - Processed 8200000 reads so far
2011-05-20 12:20:57,264 - INFO - Processed 8300000 reads so far
2011-05-20 12:21:09,500 - INFO - Processed 8400000 reads so far
2011-05-20 12:21:21,405 - INFO - Processed 8500000 reads so far
2011-05-20 12:21:32,924 - INFO - Processed 8600000 reads so far
2011-05-20 12:21:35,293 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:42990074-63010074
2011-05-20 12:21:46,242 - INFO - Processed 8700000 reads so far
2011-05-20 12:21:58,667 - INFO - Processed 8800000 reads so far
2011-05-20 12:22:11,102 - INFO - Processed 8900000 reads so far
2011-05-20 12:22:23,437 - INFO - Processed 9000000 reads so far
2011-05-20 12:22:35,434 - INFO - Processed 9100000 reads so far
2011-05-20 12:22:48,965 - INFO - Processed 9200000 reads so far
2011-05-20 12:23:01,132 - INFO - Processed 9300000 reads so far
2011-05-20 12:23:14,070 - INFO - Processed 9400000 reads so far
2011-05-20 12:23:30,652 - INFO - Processed 9500000 reads so far
2011-05-20 12:23:42,133 - INFO - Processed 9600000 reads so far
2011-05-20 12:23:53,547 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:62990075-83010075
2011-05-20 12:23:54,809 - INFO - Processed 9700000 reads so far
2011-05-20 12:24:07,440 - INFO - Processed 9800000 reads so far
2011-05-20 12:24:18,977 - INFO - Processed 9900000 reads so far
2011-05-20 12:24:30,725 - INFO - Processed 10000000 reads so far
2011-05-20 12:24:41,551 - INFO - Processed 10100000 reads so far
2011-05-20 12:24:53,509 - INFO - Processed 10200000 reads so far
2011-05-20 12:25:04,082 - INFO - Processed 10300000 reads so far
2011-05-20 12:25:16,534 - INFO - Processed 10400000 reads so far
2011-05-20 12:25:29,990 - INFO - Processed 10500000 reads so far
2011-05-20 12:25:41,652 - INFO - Processed 10600000 reads so far
2011-05-20 12:25:51,317 - INFO - Processed 10700000 reads so far
2011-05-20 12:25:56,890 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:82990077-103010077
2011-05-20 12:26:03,120 - INFO - Processed 10800000 reads so far
2011-05-20 12:26:14,462 - INFO - Processed 10900000 reads so far
2011-05-20 12:26:25,606 - INFO - Processed 11000000 reads so far
2011-05-20 12:26:37,636 - INFO - Processed 11100000 reads so far
2011-05-20 12:26:51,258 - INFO - Processed 11200000 reads so far
2011-05-20 12:27:03,375 - INFO - Processed 11300000 reads so far
2011-05-20 12:27:16,042 - INFO - Processed 11400000 reads so far
2011-05-20 12:27:27,312 - INFO - Processed 11500000 reads so far
2011-05-20 12:27:38,902 - INFO - Processed 11600000 reads so far
2011-05-20 12:27:50,802 - INFO - Processed 11700000 reads so far
2011-05-20 12:27:58,481 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:102990103-123010103
2011-05-20 12:28:04,898 - INFO - Processed 11800000 reads so far
2011-05-20 12:28:16,494 - INFO - Processed 11900000 reads so far
2011-05-20 12:28:28,517 - INFO - Processed 12000000 reads so far
2011-05-20 12:28:40,263 - INFO - Processed 12100000 reads so far
2011-05-20 12:28:50,007 - INFO - Processed 12200000 reads so far
2011-05-20 12:29:01,075 - INFO - Processed 12300000 reads so far
2011-05-20 12:29:14,219 - INFO - Processed 12400000 reads so far
2011-05-20 12:29:26,494 - INFO - Processed 12500000 reads so far
2011-05-20 12:29:38,362 - INFO - Processed 12600000 reads so far
2011-05-20 12:29:49,922 - INFO - Processed 12700000 reads so far
2011-05-20 12:29:59,025 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:2990063-23010063
2011-05-20 12:30:00,923 - INFO - Processed 12800000 reads so far
2011-05-20 12:30:08,485 - INFO - Processed 12900000 reads so far
2011-05-20 12:30:21,178 - INFO - Processed 13000000 reads so far
2011-05-20 12:30:32,315 - INFO - Processed 13100000 reads so far
2011-05-20 12:30:43,165 - INFO - Processed 13200000 reads so far
2011-05-20 12:30:53,284 - INFO - Processed 13300000 reads so far
2011-05-20 12:31:06,267 - INFO - Processed 13400000 reads so far
2011-05-20 12:31:18,125 - INFO - Processed 13500000 reads so far
2011-05-20 12:31:29,108 - INFO - Processed 13600000 reads so far
2011-05-20 12:31:41,930 - INFO - Processed 13700000 reads so far
2011-05-20 12:31:57,872 - INFO - Processed 13800000 reads so far
2011-05-20 12:32:09,609 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:22990192-43010192
2011-05-20 12:32:10,750 - INFO - Processed 13900000 reads so far
2011-05-20 12:32:25,576 - INFO - Processed 14000000 reads so far
2011-05-20 12:32:37,343 - INFO - Processed 14100000 reads so far
2011-05-20 12:32:49,506 - INFO - Processed 14200000 reads so far
2011-05-20 12:33:00,890 - INFO - Processed 14300000 reads so far
2011-05-20 12:33:12,122 - INFO - Processed 14400000 reads so far
2011-05-20 12:33:23,435 - INFO - Processed 14500000 reads so far
2011-05-20 12:33:35,192 - INFO - Processed 14600000 reads so far
2011-05-20 12:33:46,250 - INFO - Processed 14700000 reads so far
2011-05-20 12:33:58,005 - INFO - Processed 14800000 reads so far
2011-05-20 12:34:01,761 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:42990197-63010197
2011-05-20 12:34:09,229 - INFO - Processed 14900000 reads so far
2011-05-20 12:34:20,531 - INFO - Processed 15000000 reads so far
2011-05-20 12:34:40,268 - INFO - Processed 15100000 reads so far
2011-05-20 12:34:51,693 - INFO - Processed 15200000 reads so far
2011-05-20 12:35:03,742 - INFO - Processed 15300000 reads so far
2011-05-20 12:35:16,079 - INFO - Processed 15400000 reads so far
2011-05-20 12:35:28,118 - INFO - Processed 15500000 reads so far
2011-05-20 12:35:40,521 - INFO - Processed 15600000 reads so far
2011-05-20 12:35:51,731 - INFO - Processed 15700000 reads so far
2011-05-20 12:36:03,291 - INFO - Processed 15800000 reads so far
2011-05-20 12:36:04,610 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:62990251-83010251
2011-05-20 12:36:16,241 - INFO - Processed 15900000 reads so far
2011-05-20 12:36:29,077 - INFO - Processed 16000000 reads so far
2011-05-20 12:36:41,502 - INFO - Processed 16100000 reads so far
2011-05-20 12:36:53,800 - INFO - Processed 16200000 reads so far
2011-05-20 12:37:05,351 - INFO - Processed 16300000 reads so far
2011-05-20 12:37:16,715 - INFO - Processed 16400000 reads so far
2011-05-20 12:37:29,878 - INFO - Processed 16500000 reads so far
2011-05-20 12:37:42,316 - INFO - Processed 16600000 reads so far
2011-05-20 12:37:55,516 - INFO - Processed 16700000 reads so far
2011-05-20 12:38:08,447 - INFO - Processed 16800000 reads so far
2011-05-20 12:38:10,563 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:82990256-103010256
2011-05-20 12:38:20,591 - INFO - Processed 16900000 reads so far
2011-05-20 12:38:33,118 - INFO - Processed 17000000 reads so far
2011-05-20 12:38:46,158 - INFO - Processed 17100000 reads so far
2011-05-20 12:38:58,593 - INFO - Processed 17200000 reads so far
2011-05-20 12:39:10,668 - INFO - Processed 17300000 reads so far
2011-05-20 12:39:22,938 - INFO - Processed 17400000 reads so far
2011-05-20 12:39:35,409 - INFO - Processed 17500000 reads so far
2011-05-20 12:39:47,162 - INFO - Processed 17600000 reads so far
2011-05-20 12:39:59,086 - INFO - Processed 17700000 reads so far
2011-05-20 12:40:12,456 - INFO - Processed 17800000 reads so far
2011-05-20 12:40:16,942 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:102990265-123010265
2011-05-20 12:40:26,978 - INFO - Processed 17900000 reads so far
2011-05-20 12:40:39,726 - INFO - Processed 18000000 reads so far
2011-05-20 12:40:51,474 - INFO - Processed 18100000 reads so far
2011-05-20 12:41:04,863 - INFO - Processed 18200000 reads so far
2011-05-20 12:41:17,940 - INFO - Processed 18300000 reads so far
2011-05-20 12:41:29,318 - INFO - Processed 18400000 reads so far
2011-05-20 12:41:42,240 - INFO - Processed 18500000 reads so far
2011-05-20 12:41:53,866 - INFO - Processed 18600000 reads so far
2011-05-20 12:42:05,270 - INFO - Processed 18700000 reads so far
2011-05-20 12:42:17,324 - INFO - Processed 18800000 reads so far
2011-05-20 12:42:30,094 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:2990111-23010111
2011-05-20 12:42:30,256 - INFO - Processed 18900000 reads so far
2011-05-20 12:42:41,626 - INFO - Processed 19000000 reads so far
2011-05-20 12:42:54,046 - INFO - Processed 19100000 reads so far
2011-05-20 12:43:05,162 - INFO - Processed 19200000 reads so far
2011-05-20 12:43:16,946 - INFO - Processed 19300000 reads so far
2011-05-20 12:43:29,300 - INFO - Processed 19400000 reads so far
2011-05-20 12:43:40,668 - INFO - Processed 19500000 reads so far
2011-05-20 12:43:52,558 - INFO - Processed 19600000 reads so far
2011-05-20 12:44:03,832 - INFO - Processed 19700000 reads so far
2011-05-20 12:44:15,996 - INFO - Processed 19800000 reads so far
2011-05-20 12:44:25,096 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:22990151-43010151
2011-05-20 12:44:27,453 - INFO - Processed 19900000 reads so far
2011-05-20 12:44:38,684 - INFO - Processed 20000000 reads so far
2011-05-20 12:44:48,002 - INFO - Processed 20100000 reads so far
2011-05-20 12:45:00,243 - INFO - Processed 20200000 reads so far
2011-05-20 12:45:11,550 - INFO - Processed 20300000 reads so far
2011-05-20 12:45:22,969 - INFO - Processed 20400000 reads so far
2011-05-20 12:45:32,940 - INFO - Processed 20500000 reads so far
2011-05-20 12:45:44,766 - INFO - Processed 20600000 reads so far
2011-05-20 12:45:57,127 - INFO - Processed 20700000 reads so far
2011-05-20 12:46:08,083 - INFO - Processed 20800000 reads so far
2011-05-20 12:46:18,977 - INFO - Processed 20900000 reads so far
2011-05-20 12:46:20,902 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:42990173-63010173
2011-05-20 12:46:29,604 - INFO - Processed 21000000 reads so far
2011-05-20 12:46:38,884 - INFO - Processed 21100000 reads so far
2011-05-20 12:46:50,506 - INFO - Processed 21200000 reads so far
2011-05-20 12:47:02,938 - INFO - Processed 21300000 reads so far
2011-05-20 12:47:13,957 - INFO - Processed 21400000 reads so far
2011-05-20 12:47:25,049 - INFO - Processed 21500000 reads so far
2011-05-20 12:47:35,913 - INFO - Processed 21600000 reads so far
2011-05-20 12:47:47,836 - INFO - Processed 21700000 reads so far
2011-05-20 12:47:59,049 - INFO - Processed 21800000 reads so far
2011-05-20 12:48:10,141 - INFO - Processed 21900000 reads so far
2011-05-20 12:48:19,531 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:62990215-83010215
2011-05-20 12:48:20,225 - INFO - Processed 22000000 reads so far
2011-05-20 12:48:32,818 - INFO - Processed 22100000 reads so far
2011-05-20 12:48:43,805 - INFO - Processed 22200000 reads so far
2011-05-20 12:48:53,173 - INFO - Processed 22300000 reads so far
2011-05-20 12:49:04,190 - INFO - Processed 22400000 reads so far
2011-05-20 12:49:14,670 - INFO - Processed 22500000 reads so far
2011-05-20 12:49:25,187 - INFO - Processed 22600000 reads so far
2011-05-20 12:49:38,259 - INFO - Processed 22700000 reads so far
2011-05-20 12:49:50,074 - INFO - Processed 22800000 reads so far
2011-05-20 12:50:00,930 - INFO - Processed 22900000 reads so far
2011-05-20 12:50:12,634 - INFO - Processed 23000000 reads so far
2011-05-20 12:50:17,133 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:82990224-103010224
2011-05-20 12:50:22,629 - INFO - Processed 23100000 reads so far
2011-05-20 12:50:33,748 - INFO - Processed 23200000 reads so far
2011-05-20 12:50:44,490 - INFO - Processed 23300000 reads so far
2011-05-20 12:50:55,548 - INFO - Processed 23400000 reads so far
2011-05-20 12:51:06,483 - INFO - Processed 23500000 reads so far
2011-05-20 12:51:14,021 - INFO - Processed 23600000 reads so far
2011-05-20 12:51:21,293 - INFO - Processed 23700000 reads so far
2011-05-20 12:51:29,400 - INFO - Processed 23800000 reads so far
2011-05-20 12:51:38,291 - INFO - Processed 23900000 reads so far
2011-05-20 12:51:47,591 - INFO - Processed 24000000 reads so far
2011-05-20 12:51:50,300 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:102990412-123010412
2011-05-20 12:51:58,903 - INFO - Processed 24100000 reads so far
2011-05-20 12:52:09,825 - INFO - Processed 24200000 reads so far
2011-05-20 12:52:20,330 - INFO - Processed 24300000 reads so far
2011-05-20 12:52:29,799 - INFO - Processed 24400000 reads so far
2011-05-20 12:52:39,560 - INFO - Processed 24500000 reads so far
2011-05-20 12:52:50,198 - INFO - Processed 24600000 reads so far
2011-05-20 12:53:01,477 - INFO - Processed 24700000 reads so far
2011-05-20 12:53:12,129 - INFO - Processed 24800000 reads so far
2011-05-20 12:53:21,280 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13_random:0-20010000
2011-05-20 12:53:22,524 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:2990001-23010001
2011-05-20 12:53:23,074 - INFO - Processed 24900000 reads so far
2011-05-20 12:53:34,434 - INFO - Processed 25000000 reads so far
2011-05-20 12:53:45,206 - INFO - Processed 25100000 reads so far
2011-05-20 12:53:54,609 - INFO - Processed 25200000 reads so far
2011-05-20 12:54:02,832 - INFO - Processed 25300000 reads so far
2011-05-20 12:54:10,456 - INFO - Processed 25400000 reads so far
2011-05-20 12:54:18,249 - INFO - Processed 25500000 reads so far
2011-05-20 12:54:26,868 - INFO - Processed 25600000 reads so far
2011-05-20 12:54:34,784 - INFO - Processed 25700000 reads so far
2011-05-20 12:54:42,974 - INFO - Processed 25800000 reads so far
2011-05-20 12:54:46,571 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:22990013-43010013
2011-05-20 12:54:50,844 - INFO - Processed 25900000 reads so far
2011-05-20 12:54:58,763 - INFO - Processed 26000000 reads so far
2011-05-20 12:55:06,770 - INFO - Processed 26100000 reads so far
2011-05-20 12:55:14,680 - INFO - Processed 26200000 reads so far
2011-05-20 12:55:24,198 - INFO - Processed 26300000 reads so far
2011-05-20 12:55:33,120 - INFO - Processed 26400000 reads so far
2011-05-20 12:55:40,316 - INFO - Processed 26500000 reads so far
2011-05-20 12:55:49,159 - INFO - Processed 26600000 reads so far
2011-05-20 12:55:58,635 - INFO - Processed 26700000 reads so far
2011-05-20 12:56:06,674 - INFO - Processed 26800000 reads so far
2011-05-20 12:56:10,714 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:42991364-63011364
2011-05-20 12:56:14,200 - INFO - Processed 26900000 reads so far
2011-05-20 12:56:22,488 - INFO - Processed 27000000 reads so far
2011-05-20 12:56:30,443 - INFO - Processed 27100000 reads so far
2011-05-20 12:56:38,395 - INFO - Processed 27200000 reads so far
2011-05-20 12:56:48,689 - INFO - Processed 27300000 reads so far
2011-05-20 12:56:55,507 - INFO - Processed 27400000 reads so far
2011-05-20 12:57:03,252 - INFO - Processed 27500000 reads so far
2011-05-20 12:57:10,881 - INFO - Processed 27600000 reads so far
2011-05-20 12:57:18,557 - INFO - Processed 27700000 reads so far
2011-05-20 12:57:25,884 - INFO - Processed 27800000 reads so far
2011-05-20 12:57:29,109 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:62991385-83011385
2011-05-20 12:57:33,531 - INFO - Processed 27900000 reads so far
2011-05-20 12:57:41,415 - INFO - Processed 28000000 reads so far
2011-05-20 12:57:49,490 - INFO - Processed 28100000 reads so far
2011-05-20 12:57:57,376 - INFO - Processed 28200000 reads so far
2011-05-20 12:58:06,593 - INFO - Processed 28300000 reads so far
2011-05-20 12:58:14,626 - INFO - Processed 28400000 reads so far
2011-05-20 12:58:36,544 - INFO - Processed 28500000 reads so far
2011-05-20 12:58:47,512 - INFO - Processed 28600000 reads so far
2011-05-20 12:58:55,465 - INFO - Processed 28700000 reads so far
2011-05-20 12:59:04,700 - INFO - Processed 28800000 reads so far
2011-05-20 12:59:13,170 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:82991390-103011390
2011-05-20 12:59:14,237 - INFO - Processed 28900000 reads so far
2011-05-20 12:59:23,407 - INFO - Processed 29000000 reads so far
2011-05-20 12:59:32,245 - INFO - Processed 29100000 reads so far
2011-05-20 12:59:42,160 - INFO - Processed 29200000 reads so far
2011-05-20 12:59:51,639 - INFO - Processed 29300000 reads so far
2011-05-20 13:00:00,982 - INFO - Processed 29400000 reads so far
2011-05-20 13:00:10,764 - INFO - Processed 29500000 reads so far
2011-05-20 13:00:19,063 - INFO - Processed 29600000 reads so far
2011-05-20 13:00:28,141 - INFO - Processed 29700000 reads so far
2011-05-20 13:00:39,702 - INFO - Processed 29800000 reads so far
2011-05-20 13:00:41,623 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:102991394-123011394
2011-05-20 13:00:48,063 - INFO - Processed 29900000 reads so far
2011-05-20 13:00:56,393 - INFO - Processed 30000000 reads so far
2011-05-20 13:01:04,189 - INFO - Processed 30100000 reads so far
2011-05-20 13:01:14,298 - INFO - Processed 30200000 reads so far
2011-05-20 13:01:23,755 - INFO - Processed 30300000 reads so far
2011-05-20 13:01:32,665 - INFO - Processed 30400000 reads so far
2011-05-20 13:01:41,137 - INFO - Processed 30500000 reads so far
2011-05-20 13:01:48,783 - INFO - Processed 30600000 reads so far
2011-05-20 13:01:58,510 - INFO - Processed 30700000 reads so far
2011-05-20 13:02:06,900 - INFO - Processed 30800000 reads so far
2011-05-20 13:02:06,946 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:122991414-143011414
2011-05-20 13:02:15,848 - INFO - Processed 30900000 reads so far
2011-05-20 13:02:17,107 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:2990041-23010041
2011-05-20 13:02:25,347 - INFO - Processed 31000000 reads so far
2011-05-20 13:02:35,957 - INFO - Processed 31100000 reads so far
2011-05-20 13:02:45,344 - INFO - Processed 31200000 reads so far
2011-05-20 13:02:55,584 - INFO - Processed 31300000 reads so far
2011-05-20 13:03:04,704 - INFO - Processed 31400000 reads so far
2011-05-20 13:03:15,075 - INFO - Processed 31500000 reads so far
2011-05-20 13:03:23,933 - INFO - Processed 31600000 reads so far
2011-05-20 13:03:33,730 - INFO - Processed 31700000 reads so far
2011-05-20 13:03:42,371 - INFO - Processed 31800000 reads so far
2011-05-20 13:03:49,299 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:22990043-43010043
2011-05-20 13:03:50,529 - INFO - Processed 31900000 reads so far
2011-05-20 13:03:59,499 - INFO - Processed 32000000 reads so far
2011-05-20 13:04:09,160 - INFO - Processed 32100000 reads so far
2011-05-20 13:04:18,338 - INFO - Processed 32200000 reads so far
2011-05-20 13:04:27,707 - INFO - Processed 32300000 reads so far
2011-05-20 13:04:37,188 - INFO - Processed 32400000 reads so far
2011-05-20 13:04:48,050 - INFO - Processed 32500000 reads so far
2011-05-20 13:04:57,781 - INFO - Processed 32600000 reads so far
2011-05-20 13:05:06,889 - INFO - Processed 32700000 reads so far
2011-05-20 13:05:18,126 - INFO - Processed 32800000 reads so far
2011-05-20 13:05:26,528 - INFO - Processed 32900000 reads so far
2011-05-20 13:05:26,703 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:42990056-63010056
2011-05-20 13:05:36,204 - INFO - Processed 33000000 reads so far
2011-05-20 13:05:45,635 - INFO - Processed 33100000 reads so far
2011-05-20 13:05:54,973 - INFO - Processed 33200000 reads so far
2011-05-20 13:06:03,238 - INFO - Processed 33300000 reads so far
2011-05-20 13:06:12,423 - INFO - Processed 33400000 reads so far
2011-05-20 13:06:20,720 - INFO - Processed 33500000 reads so far
2011-05-20 13:06:30,383 - INFO - Processed 33600000 reads so far
2011-05-20 13:06:39,305 - INFO - Processed 33700000 reads so far
2011-05-20 13:06:48,985 - INFO - Processed 33800000 reads so far
2011-05-20 13:06:59,834 - INFO - Processed 33900000 reads so far
2011-05-20 13:06:59,882 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:62990068-83010068
2011-05-20 13:07:10,651 - INFO - Processed 34000000 reads so far
2011-05-20 13:07:19,246 - INFO - Processed 34100000 reads so far
2011-05-20 13:07:27,447 - INFO - Processed 34200000 reads so far
2011-05-20 13:07:36,659 - INFO - Processed 34300000 reads so far
2011-05-20 13:07:46,896 - INFO - Processed 34400000 reads so far
2011-05-20 13:07:56,280 - INFO - Processed 34500000 reads so far
2011-05-20 13:08:06,049 - INFO - Processed 34600000 reads so far
2011-05-20 13:08:17,915 - INFO - Processed 34700000 reads so far
2011-05-20 13:08:26,233 - INFO - Processed 34800000 reads so far
2011-05-20 13:08:36,513 - INFO - Processed 34900000 reads so far
2011-05-20 13:08:45,215 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:82990105-103010105
2011-05-20 13:08:45,345 - INFO - Processed 35000000 reads so far
2011-05-20 13:08:53,935 - INFO - Processed 35100000 reads so far
2011-05-20 13:09:02,561 - INFO - Processed 35200000 reads so far
2011-05-20 13:09:11,359 - INFO - Processed 35300000 reads so far
2011-05-20 13:09:20,084 - INFO - Processed 35400000 reads so far
2011-05-20 13:09:28,518 - INFO - Processed 35500000 reads so far
2011-05-20 13:09:52,578 - INFO - Processed 35600000 reads so far
2011-05-20 13:10:05,053 - INFO - Processed 35700000 reads so far
2011-05-20 13:10:16,324 - INFO - Processed 35800000 reads so far
2011-05-20 13:10:35,369 - INFO - Processed 35900000 reads so far
2011-05-20 13:10:47,772 - INFO - Processed 36000000 reads so far
2011-05-20 13:10:53,160 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:102990118-123010118
2011-05-20 13:11:06,922 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16:2990109-23010109
2011-05-20 13:11:10,219 - INFO - Processed 36100000 reads so far
2011-05-20 13:11:21,626 - INFO - Processed 36200000 reads so far
2011-05-20 13:11:35,987 - INFO - Processed 36300000 reads so far
2011-05-20 13:11:55,334 - INFO - Processed 36400000 reads so far
2011-05-20 13:12:08,049 - INFO - Processed 36500000 reads so far
2011-05-20 13:12:19,145 - INFO - Processed 36600000 reads so far
2011-05-20 13:12:30,253 - INFO - Processed 36700000 reads so far
2011-05-20 13:12:52,738 - INFO - Processed 36800000 reads so far
2011-05-20 13:13:04,594 - INFO - Processed 36900000 reads so far
2011-05-20 13:13:22,092 - INFO - Processed 37000000 reads so far
2011-05-20 13:13:39,040 - INFO - Processed 37100000 reads so far
2011-05-20 13:13:50,632 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16:22990113-43010113
2011-05-20 13:13:51,260 - INFO - Processed 37200000 reads so far
2011-05-20 13:14:12,297 - INFO - Processed 37300000 reads so far
2011-05-20 13:14:22,316 - INFO - Processed 37400000 reads so far
2011-05-20 13:14:36,315 - INFO - Processed 37500000 reads so far
2011-05-20 13:14:53,348 - INFO - Processed 37600000 reads so far
2011-05-20 13:15:02,412 - INFO - Processed 37700000 reads so far
2011-05-20 13:15:18,835 - INFO - Processed 37800000 reads so far
2011-05-20 13:15:33,076 - INFO - Processed 37900000 reads so far
2011-05-20 13:15:44,754 - INFO - Processed 38000000 reads so far
2011-05-20 13:15:56,706 - INFO - Processed 38100000 reads so far
2011-05-20 13:16:08,788 - INFO - Processed 38200000 reads so far
2011-05-20 13:16:10,668 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16:42990127-63010127
2011-05-20 13:16:19,498 - INFO - Processed 38300000 reads so far
2011-05-20 13:16:26,928 - INFO - Processed 38400000 reads so far
2011-05-20 13:16:39,490 - INFO - Processed 38500000 reads so far
2011-05-20 13:16:50,899 - INFO - Processed 38600000 reads so far
2011-05-20 13:17:02,971 - INFO - Processed 38700000 reads so far
2011-05-20 13:17:13,801 - INFO - Processed 38800000 reads so far
2011-05-20 13:17:28,063 - INFO - Processed 38900000 reads so far
2011-05-20 13:17:39,069 - INFO - Processed 39000000 reads so far
2011-05-20 13:17:50,038 - INFO - Processed 39100000 reads so far
2011-05-20 13:18:01,448 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16:62990156-83010156
2011-05-20 13:18:01,943 - INFO - Processed 39200000 reads so far
2011-05-20 13:18:13,094 - INFO - Processed 39300000 reads so far
2011-05-20 13:18:23,105 - INFO - Processed 39400000 reads so far
2011-05-20 13:18:31,693 - INFO - Processed 39500000 reads so far
2011-05-20 13:18:41,092 - INFO - Processed 39600000 reads so far
2011-05-20 13:18:50,942 - INFO - Processed 39700000 reads so far
2011-05-20 13:18:59,688 - INFO - Processed 39800000 reads so far
2011-05-20 13:19:09,111 - INFO - Processed 39900000 reads so far
2011-05-20 13:19:18,772 - INFO - Processed 40000000 reads so far
2011-05-20 13:19:26,632 - INFO - Processed 40100000 reads so far
2011-05-20 13:19:30,861 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16:82990161-103010161
2011-05-20 13:19:35,249 - INFO - Processed 40200000 reads so far
2011-05-20 13:19:43,238 - INFO - Processed 40300000 reads so far
2011-05-20 13:19:54,388 - INFO - Processed 40400000 reads so far
2011-05-20 13:20:03,523 - INFO - Processed 40500000 reads so far
2011-05-20 13:20:12,063 - INFO - Processed 40600000 reads so far
2011-05-20 13:20:20,863 - INFO - Processed 40700000 reads so far
2011-05-20 13:20:29,918 - INFO - Processed 40800000 reads so far
2011-05-20 13:20:38,628 - INFO - Processed 40900000 reads so far
2011-05-20 13:20:42,271 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16_random:0-20010298
2011-05-20 13:20:42,292 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17:2989994-23009994
2011-05-20 13:20:46,916 - INFO - Processed 41000000 reads so far
2011-05-20 13:20:54,978 - INFO - Processed 41100000 reads so far
2011-05-20 13:21:02,854 - INFO - Processed 41200000 reads so far
2011-05-20 13:21:12,336 - INFO - Processed 41300000 reads so far
2011-05-20 13:21:20,730 - INFO - Processed 41400000 reads so far
2011-05-20 13:21:29,440 - INFO - Processed 41500000 reads so far
2011-05-20 13:21:37,915 - INFO - Processed 41600000 reads so far
2011-05-20 13:21:46,087 - INFO - Processed 41700000 reads so far
2011-05-20 13:21:56,097 - INFO - Processed 41800000 reads so far
2011-05-20 13:22:05,309 - INFO - Processed 41900000 reads so far
2011-05-20 13:22:13,059 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17:22989997-43009997
2011-05-20 13:22:14,161 - INFO - Processed 42000000 reads so far
2011-05-20 13:22:23,341 - INFO - Processed 42100000 reads so far
2011-05-20 13:22:34,581 - INFO - Processed 42200000 reads so far
2011-05-20 13:22:43,895 - INFO - Processed 42300000 reads so far
2011-05-20 13:22:56,655 - INFO - Processed 42400000 reads so far
2011-05-20 13:23:06,680 - INFO - Processed 42500000 reads so far
2011-05-20 13:23:17,345 - INFO - Processed 42600000 reads so far
2011-05-20 13:23:26,867 - INFO - Processed 42700000 reads so far
2011-05-20 13:23:37,096 - INFO - Processed 42800000 reads so far
2011-05-20 13:23:45,499 - INFO - Processed 42900000 reads so far
2011-05-20 13:23:54,636 - INFO - Processed 43000000 reads so far
2011-05-20 13:24:06,459 - INFO - Processed 43100000 reads so far
2011-05-20 13:24:09,384 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17:42990003-63010003
2011-05-20 13:24:18,323 - INFO - Processed 43200000 reads so far
2011-05-20 13:24:29,448 - INFO - Processed 43300000 reads so far
2011-05-20 13:24:40,031 - INFO - Processed 43400000 reads so far
2011-05-20 13:24:50,612 - INFO - Processed 43500000 reads so far
2011-05-20 13:25:01,776 - INFO - Processed 43600000 reads so far
2011-05-20 13:25:14,531 - INFO - Processed 43700000 reads so far
2011-05-20 13:25:27,928 - INFO - Processed 43800000 reads so far
2011-05-20 13:25:37,187 - INFO - Processed 43900000 reads so far
2011-05-20 13:25:44,751 - INFO - Processed 44000000 reads so far
2011-05-20 13:25:53,775 - INFO - Processed 44100000 reads so far
2011-05-20 13:25:57,283 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17:62990006-83010006
2011-05-20 13:26:04,848 - INFO - Processed 44200000 reads so far
2011-05-20 13:26:15,900 - INFO - Processed 44300000 reads so far
2011-05-20 13:26:26,840 - INFO - Processed 44400000 reads so far
2011-05-20 13:26:38,222 - INFO - Processed 44500000 reads so far
2011-05-20 13:26:48,709 - INFO - Processed 44600000 reads so far
2011-05-20 13:26:57,187 - INFO - Processed 44700000 reads so far
2011-05-20 13:27:09,568 - INFO - Processed 44800000 reads so far
2011-05-20 13:27:20,818 - INFO - Processed 44900000 reads so far
2011-05-20 13:27:32,520 - INFO - Processed 45000000 reads so far
2011-05-20 13:27:45,741 - INFO - Processed 45100000 reads so far
2011-05-20 13:27:50,378 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17:82990240-103010240
2011-05-20 13:27:54,588 - INFO - Processed 45200000 reads so far
2011-05-20 13:28:06,151 - INFO - Processed 45300000 reads so far
2011-05-20 13:28:18,874 - INFO - Processed 45400000 reads so far
2011-05-20 13:28:30,081 - INFO - Processed 45500000 reads so far
2011-05-20 13:28:41,727 - INFO - Processed 45600000 reads so far
2011-05-20 13:28:53,374 - INFO - Processed 45700000 reads so far
2011-05-20 13:29:02,935 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17_random:0-20010148
2011-05-20 13:29:04,637 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr18:2990005-23010005
2011-05-20 13:29:05,971 - INFO - Processed 45800000 reads so far
2011-05-20 13:29:17,010 - INFO - Processed 45900000 reads so far
2011-05-20 13:29:26,160 - INFO - Processed 46000000 reads so far
2011-05-20 13:29:34,886 - INFO - Processed 46100000 reads so far
2011-05-20 13:29:43,313 - INFO - Processed 46200000 reads so far
2011-05-20 13:29:51,608 - INFO - Processed 46300000 reads so far
2011-05-20 13:29:58,890 - INFO - Processed 46400000 reads so far
2011-05-20 13:30:06,678 - INFO - Processed 46500000 reads so far
2011-05-20 13:30:14,930 - INFO - Processed 46600000 reads so far
2011-05-20 13:30:23,252 - INFO - Processed 46700000 reads so far
2011-05-20 13:30:32,162 - INFO - Processed 46800000 reads so far
2011-05-20 13:30:35,629 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr18:22990011-43010011
2011-05-20 13:30:41,705 - INFO - Processed 46900000 reads so far
2011-05-20 13:30:51,184 - INFO - Processed 47000000 reads so far
2011-05-20 13:30:59,747 - INFO - Processed 47100000 reads so far
2011-05-20 13:31:08,239 - INFO - Processed 47200000 reads so far
2011-05-20 13:31:17,383 - INFO - Processed 47300000 reads so far
2011-05-20 13:31:25,839 - INFO - Processed 47400000 reads so far
2011-05-20 13:31:35,155 - INFO - Processed 47500000 reads so far
2011-05-20 13:31:44,314 - INFO - Processed 47600000 reads so far
2011-05-20 13:31:52,765 - INFO - Processed 47700000 reads so far
2011-05-20 13:32:02,381 - INFO - Processed 47800000 reads so far
2011-05-20 13:32:09,583 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr18:42990013-63010013
2011-05-20 13:32:12,277 - INFO - Processed 47900000 reads so far
2011-05-20 13:32:21,185 - INFO - Processed 48000000 reads so far
2011-05-20 13:32:30,661 - INFO - Processed 48100000 reads so far
2011-05-20 13:32:38,706 - INFO - Processed 48200000 reads so far
2011-05-20 13:32:46,514 - INFO - Processed 48300000 reads so far
2011-05-20 13:32:55,257 - INFO - Processed 48400000 reads so far
2011-05-20 13:33:02,980 - INFO - Processed 48500000 reads so far
2011-05-20 13:33:11,771 - INFO - Processed 48600000 reads so far
2011-05-20 13:33:20,202 - INFO - Processed 48700000 reads so far
2011-05-20 13:33:28,303 - INFO - Processed 48800000 reads so far
2011-05-20 13:33:35,209 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr18:62990020-83010020
2011-05-20 13:33:36,673 - INFO - Processed 48900000 reads so far
2011-05-20 13:33:44,923 - INFO - Processed 49000000 reads so far
2011-05-20 13:33:52,985 - INFO - Processed 49100000 reads so far
2011-05-20 13:34:02,298 - INFO - Processed 49200000 reads so far
2011-05-20 13:34:11,361 - INFO - Processed 49300000 reads so far
2011-05-20 13:34:19,941 - INFO - Processed 49400000 reads so far
2011-05-20 13:34:27,392 - INFO - Processed 49500000 reads so far
2011-05-20 13:34:37,069 - INFO - Processed 49600000 reads so far
2011-05-20 13:34:48,812 - INFO - Processed 49700000 reads so far
2011-05-20 13:34:59,343 - INFO - Processed 49800000 reads so far
2011-05-20 13:35:11,117 - INFO - Processed 49900000 reads so far
2011-05-20 13:35:12,774 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr18:82990053-103010053
2011-05-20 13:35:22,772 - INFO - Processed 50000000 reads so far
2011-05-20 13:35:34,388 - INFO - Processed 50100000 reads so far
2011-05-20 13:35:46,331 - INFO - Processed 50200000 reads so far
2011-05-20 13:35:56,961 - INFO - Processed 50300000 reads so far
2011-05-20 13:35:57,506 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr19:2990010-23010010
2011-05-20 13:36:07,700 - INFO - Processed 50400000 reads so far
2011-05-20 13:36:19,621 - INFO - Processed 50500000 reads so far
2011-05-20 13:36:29,402 - INFO - Processed 50600000 reads so far
2011-05-20 13:36:37,282 - INFO - Processed 50700000 reads so far
2011-05-20 13:36:51,738 - INFO - Processed 50800000 reads so far
2011-05-20 13:37:04,522 - INFO - Processed 50900000 reads so far
2011-05-20 13:37:15,610 - INFO - Processed 51000000 reads so far
2011-05-20 13:37:27,652 - INFO - Processed 51100000 reads so far
2011-05-20 13:37:38,861 - INFO - Processed 51200000 reads so far
2011-05-20 13:37:49,477 - INFO - Processed 51300000 reads so far
2011-05-20 13:37:51,204 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr19:22990065-43010065
2011-05-20 13:38:01,630 - INFO - Processed 51400000 reads so far
2011-05-20 13:38:11,469 - INFO - Processed 51500000 reads so far
2011-05-20 13:38:22,708 - INFO - Processed 51600000 reads so far
2011-05-20 13:38:32,604 - INFO - Processed 51700000 reads so far
2011-05-20 13:38:44,127 - INFO - Processed 51800000 reads so far
2011-05-20 13:38:53,852 - INFO - Processed 51900000 reads so far
2011-05-20 13:39:06,212 - INFO - Processed 52000000 reads so far
2011-05-20 13:39:15,289 - INFO - Processed 52100000 reads so far
2011-05-20 13:39:27,186 - INFO - Processed 52200000 reads so far
2011-05-20 13:39:38,382 - INFO - Processed 52300000 reads so far
2011-05-20 13:39:41,317 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr19:42990090-63010090
2011-05-20 13:39:49,487 - INFO - Processed 52400000 reads so far
2011-05-20 13:40:00,673 - INFO - Processed 52500000 reads so far
2011-05-20 13:40:12,125 - INFO - Processed 52600000 reads so far
2011-05-20 13:40:24,938 - INFO - Processed 52700000 reads so far
2011-05-20 13:40:37,770 - INFO - Processed 52800000 reads so far
2011-05-20 13:40:50,363 - INFO - Processed 52900000 reads so far
2011-05-20 13:41:01,217 - INFO - Processed 53000000 reads so far
2011-05-20 13:41:13,987 - INFO - Processed 53100000 reads so far
2011-05-20 13:41:24,621 - INFO - Processed 53200000 reads so far
2011-05-20 13:41:33,781 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:2990009-23010009
2011-05-20 13:41:35,376 - INFO - Processed 53300000 reads so far
2011-05-20 13:41:47,563 - INFO - Processed 53400000 reads so far
2011-05-20 13:41:58,893 - INFO - Processed 53500000 reads so far
2011-05-20 13:42:13,083 - INFO - Processed 53600000 reads so far
2011-05-20 13:42:24,936 - INFO - Processed 53700000 reads so far
2011-05-20 13:42:35,900 - INFO - Processed 53800000 reads so far
2011-05-20 13:42:47,446 - INFO - Processed 53900000 reads so far
2011-05-20 13:43:00,134 - INFO - Processed 54000000 reads so far
2011-05-20 13:43:11,802 - INFO - Processed 54100000 reads so far
2011-05-20 13:43:23,522 - INFO - Processed 54200000 reads so far
2011-05-20 13:43:33,132 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:22990035-43010035
2011-05-20 13:43:34,905 - INFO - Processed 54300000 reads so far
2011-05-20 13:43:44,529 - INFO - Processed 54400000 reads so far
2011-05-20 13:43:53,597 - INFO - Processed 54500000 reads so far
2011-05-20 13:44:04,641 - INFO - Processed 54600000 reads so far
2011-05-20 13:44:12,597 - INFO - Processed 54700000 reads so far
2011-05-20 13:44:22,900 - INFO - Processed 54800000 reads so far
2011-05-20 13:44:34,803 - INFO - Processed 54900000 reads so far
2011-05-20 13:44:44,384 - INFO - Processed 55000000 reads so far
2011-05-20 13:44:53,971 - INFO - Processed 55100000 reads so far
2011-05-20 13:45:03,782 - INFO - Processed 55200000 reads so far
2011-05-20 13:45:13,029 - INFO - Processed 55300000 reads so far
2011-05-20 13:45:13,897 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:42990040-63010040
2011-05-20 13:45:23,619 - INFO - Processed 55400000 reads so far
2011-05-20 13:45:32,658 - INFO - Processed 55500000 reads so far
2011-05-20 13:45:42,702 - INFO - Processed 55600000 reads so far
2011-05-20 13:45:51,497 - INFO - Processed 55700000 reads so far
2011-05-20 13:45:59,334 - INFO - Processed 55800000 reads so far
2011-05-20 13:46:07,675 - INFO - Processed 55900000 reads so far
2011-05-20 13:46:17,363 - INFO - Processed 56000000 reads so far
2011-05-20 13:46:28,379 - INFO - Processed 56100000 reads so far
2011-05-20 13:46:38,379 - INFO - Processed 56200000 reads so far
2011-05-20 13:46:47,170 - INFO - Processed 56300000 reads so far
2011-05-20 13:46:47,808 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:62990071-83010071
2011-05-20 13:46:55,698 - INFO - Processed 56400000 reads so far
2011-05-20 13:47:04,462 - INFO - Processed 56500000 reads so far
2011-05-20 13:47:13,940 - INFO - Processed 56600000 reads so far
2011-05-20 13:47:22,421 - INFO - Processed 56700000 reads so far
2011-05-20 13:47:32,025 - INFO - Processed 56800000 reads so far
2011-05-20 13:47:41,246 - INFO - Processed 56900000 reads so far
2011-05-20 13:47:49,438 - INFO - Processed 57000000 reads so far
2011-05-20 13:47:58,179 - INFO - Processed 57100000 reads so far
2011-05-20 13:48:08,815 - INFO - Processed 57200000 reads so far
2011-05-20 13:48:17,691 - INFO - Processed 57300000 reads so far
2011-05-20 13:48:19,271 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:82990075-103010075
2011-05-20 13:48:26,738 - INFO - Processed 57400000 reads so far
2011-05-20 13:48:36,169 - INFO - Processed 57500000 reads so far
2011-05-20 13:48:45,965 - INFO - Processed 57600000 reads so far
2011-05-20 13:48:56,656 - INFO - Processed 57700000 reads so far
2011-05-20 13:49:06,795 - INFO - Processed 57800000 reads so far
2011-05-20 13:49:16,325 - INFO - Processed 57900000 reads so far
2011-05-20 13:49:26,925 - INFO - Processed 58000000 reads so far
2011-05-20 13:49:36,999 - INFO - Processed 58100000 reads so far
2011-05-20 13:49:47,742 - INFO - Processed 58200000 reads so far
2011-05-20 13:49:59,008 - INFO - Processed 58300000 reads so far
2011-05-20 13:50:03,357 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:102990081-123010081
2011-05-20 13:50:10,443 - INFO - Processed 58400000 reads so far
2011-05-20 13:50:21,646 - INFO - Processed 58500000 reads so far
2011-05-20 13:50:32,261 - INFO - Processed 58600000 reads so far
2011-05-20 13:50:43,586 - INFO - Processed 58700000 reads so far
2011-05-20 13:50:55,121 - INFO - Processed 58800000 reads so far
2011-05-20 13:51:06,220 - INFO - Processed 58900000 reads so far
2011-05-20 13:51:17,273 - INFO - Processed 59000000 reads so far
2011-05-20 13:51:27,833 - INFO - Processed 59100000 reads so far
2011-05-20 13:51:37,292 - INFO - Processed 59200000 reads so far
2011-05-20 13:51:47,792 - INFO - Processed 59300000 reads so far
2011-05-20 13:51:52,711 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:122990084-143010084
2011-05-20 13:51:58,530 - INFO - Processed 59400000 reads so far
2011-05-20 13:52:09,294 - INFO - Processed 59500000 reads so far
2011-05-20 13:52:19,096 - INFO - Processed 59600000 reads so far
2011-05-20 13:52:29,997 - INFO - Processed 59700000 reads so far
2011-05-20 13:52:40,350 - INFO - Processed 59800000 reads so far
2011-05-20 13:52:51,453 - INFO - Processed 59900000 reads so far
2011-05-20 13:53:03,420 - INFO - Processed 60000000 reads so far
2011-05-20 13:53:14,221 - INFO - Processed 60100000 reads so far
2011-05-20 13:53:24,437 - INFO - Processed 60200000 reads so far
2011-05-20 13:53:35,086 - INFO - Processed 60300000 reads so far
2011-05-20 13:53:43,241 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:142990088-163010088
2011-05-20 13:53:45,454 - INFO - Processed 60400000 reads so far
2011-05-20 13:53:55,039 - INFO - Processed 60500000 reads so far
2011-05-20 13:54:05,656 - INFO - Processed 60600000 reads so far
2011-05-20 13:54:15,972 - INFO - Processed 60700000 reads so far
2011-05-20 13:54:26,236 - INFO - Processed 60800000 reads so far
2011-05-20 13:54:37,594 - INFO - Processed 60900000 reads so far
2011-05-20 13:54:48,903 - INFO - Processed 61000000 reads so far
2011-05-20 13:54:59,850 - INFO - Processed 61100000 reads so far
2011-05-20 13:55:12,434 - INFO - Processed 61200000 reads so far
2011-05-20 13:55:21,854 - INFO - Processed 61300000 reads so far
2011-05-20 13:55:27,240 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:162990091-183010091
2011-05-20 13:55:30,435 - INFO - Processed 61400000 reads so far
2011-05-20 13:55:39,792 - INFO - Processed 61500000 reads so far
2011-05-20 13:55:48,439 - INFO - Processed 61600000 reads so far
2011-05-20 13:55:56,932 - INFO - Processed 61700000 reads so far
2011-05-20 13:56:05,628 - INFO - Processed 61800000 reads so far
2011-05-20 13:56:15,474 - INFO - Processed 61900000 reads so far
2011-05-20 13:56:26,364 - INFO - Processed 62000000 reads so far
2011-05-20 13:56:38,352 - INFO - Processed 62100000 reads so far
2011-05-20 13:56:49,350 - INFO - Processed 62200000 reads so far
2011-05-20 13:57:00,762 - INFO - Processed 62300000 reads so far
2011-05-20 13:57:11,895 - INFO - Processed 62400000 reads so far
2011-05-20 13:57:13,593 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:182990110-203010110
2011-05-20 13:57:23,150 - INFO - Processed 62500000 reads so far
2011-05-20 13:57:31,305 - INFO - Processed 62600000 reads so far
2011-05-20 13:57:39,637 - INFO - Processed 62700000 reads so far
2011-05-20 13:57:48,007 - INFO - Processed 62800000 reads so far
2011-05-20 13:57:57,152 - INFO - Processed 62900000 reads so far
2011-05-20 13:58:05,916 - INFO - Processed 63000000 reads so far
2011-05-20 13:58:14,449 - INFO - Processed 63100000 reads so far
2011-05-20 13:58:19,727 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1_random:0-20010013
2011-05-20 13:58:24,541 - INFO - Processed 63200000 reads so far
2011-05-20 13:58:29,379 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:2990015-23010015
2011-05-20 13:58:33,156 - INFO - Processed 63300000 reads so far
2011-05-20 13:58:43,094 - INFO - Processed 63400000 reads so far
2011-05-20 13:58:52,226 - INFO - Processed 63500000 reads so far
2011-05-20 13:59:01,171 - INFO - Processed 63600000 reads so far
2011-05-20 13:59:09,877 - INFO - Processed 63700000 reads so far
2011-05-20 13:59:18,150 - INFO - Processed 63800000 reads so far
2011-05-20 13:59:26,720 - INFO - Processed 63900000 reads so far
2011-05-20 13:59:35,227 - INFO - Processed 64000000 reads so far
2011-05-20 13:59:45,762 - INFO - Processed 64100000 reads so far
2011-05-20 13:59:58,765 - INFO - Processed 64200000 reads so far
2011-05-20 14:00:07,833 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:22990067-43010067
2011-05-20 14:00:09,825 - INFO - Processed 64300000 reads so far
2011-05-20 14:00:21,499 - INFO - Processed 64400000 reads so far
2011-05-20 14:00:32,758 - INFO - Processed 64500000 reads so far
2011-05-20 14:00:45,215 - INFO - Processed 64600000 reads so far
2011-05-20 14:00:56,520 - INFO - Processed 64700000 reads so far
2011-05-20 14:01:08,617 - INFO - Processed 64800000 reads so far
2011-05-20 14:01:20,247 - INFO - Processed 64900000 reads so far
2011-05-20 14:01:29,290 - INFO - Processed 65000000 reads so far
2011-05-20 14:01:37,878 - INFO - Processed 65100000 reads so far
2011-05-20 14:01:46,358 - INFO - Processed 65200000 reads so far
2011-05-20 14:01:57,163 - INFO - Processed 65300000 reads so far
2011-05-20 14:02:02,543 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:42990084-63010084
2011-05-20 14:02:06,127 - INFO - Processed 65400000 reads so far
2011-05-20 14:02:15,212 - INFO - Processed 65500000 reads so far
2011-05-20 14:02:22,954 - INFO - Processed 65600000 reads so far
2011-05-20 14:02:32,265 - INFO - Processed 65700000 reads so far
2011-05-20 14:02:41,340 - INFO - Processed 65800000 reads so far
2011-05-20 14:02:50,612 - INFO - Processed 65900000 reads so far
2011-05-20 14:03:00,609 - INFO - Processed 66000000 reads so far
2011-05-20 14:03:10,554 - INFO - Processed 66100000 reads so far
2011-05-20 14:03:20,770 - INFO - Processed 66200000 reads so far
2011-05-20 14:03:30,109 - INFO - Processed 66300000 reads so far
2011-05-20 14:03:34,547 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:62990087-83010087
2011-05-20 14:03:41,026 - INFO - Processed 66400000 reads so far
2011-05-20 14:03:50,808 - INFO - Processed 66500000 reads so far
2011-05-20 14:04:00,733 - INFO - Processed 66600000 reads so far
2011-05-20 14:04:11,903 - INFO - Processed 66700000 reads so far
2011-05-20 14:04:22,009 - INFO - Processed 66800000 reads so far
2011-05-20 14:04:30,610 - INFO - Processed 66900000 reads so far
2011-05-20 14:04:40,390 - INFO - Processed 67000000 reads so far
2011-05-20 14:04:49,041 - INFO - Processed 67100000 reads so far
2011-05-20 14:04:56,545 - INFO - Processed 67200000 reads so far
2011-05-20 14:05:05,715 - INFO - Processed 67300000 reads so far
2011-05-20 14:05:15,259 - INFO - Processed 67400000 reads so far
2011-05-20 14:05:24,000 - INFO - Processed 67500000 reads so far
2011-05-20 14:05:24,286 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:82990141-103010141
2011-05-20 14:05:32,436 - INFO - Processed 67600000 reads so far
2011-05-20 14:05:41,302 - INFO - Processed 67700000 reads so far
2011-05-20 14:05:50,328 - INFO - Processed 67800000 reads so far
2011-05-20 14:06:01,582 - INFO - Processed 67900000 reads so far
2011-05-20 14:06:14,386 - INFO - Processed 68000000 reads so far
2011-05-20 14:06:25,194 - INFO - Processed 68100000 reads so far
2011-05-20 14:06:35,364 - INFO - Processed 68200000 reads so far
2011-05-20 14:06:43,282 - INFO - Processed 68300000 reads so far
2011-05-20 14:06:50,672 - INFO - Processed 68400000 reads so far
2011-05-20 14:06:58,708 - INFO - Processed 68500000 reads so far
2011-05-20 14:07:06,111 - INFO - Processed 68600000 reads so far
2011-05-20 14:07:13,519 - INFO - Processed 68700000 reads so far
2011-05-20 14:07:20,822 - INFO - Processed 68800000 reads so far
2011-05-20 14:07:29,194 - INFO - Processed 68900000 reads so far
2011-05-20 14:07:37,624 - INFO - Processed 69000000 reads so far
2011-05-20 14:07:44,828 - INFO - Processed 69100000 reads so far
2011-05-20 14:07:53,628 - INFO - Processed 69200000 reads so far
2011-05-20 14:08:01,172 - INFO - Processed 69300000 reads so far
2011-05-20 14:08:08,843 - INFO - Processed 69400000 reads so far
2011-05-20 14:08:15,945 - INFO - Processed 69500000 reads so far
2011-05-20 14:08:24,179 - INFO - Processed 69600000 reads so far
2011-05-20 14:08:31,005 - INFO - Processed 69700000 reads so far
2011-05-20 14:08:38,368 - INFO - Processed 69800000 reads so far
2011-05-20 14:08:45,495 - INFO - Processed 69900000 reads so far
2011-05-20 14:08:54,706 - INFO - Processed 70000000 reads so far
2011-05-20 14:09:05,103 - INFO - Processed 70100000 reads so far
2011-05-20 14:09:12,413 - INFO - Processed 70200000 reads so far
2011-05-20 14:09:19,405 - INFO - Processed 70300000 reads so far
2011-05-20 14:09:27,252 - INFO - Processed 70400000 reads so far
2011-05-20 14:09:35,458 - INFO - Processed 70500000 reads so far
2011-05-20 14:09:42,901 - INFO - Processed 70600000 reads so far
2011-05-20 14:09:50,988 - INFO - Processed 70700000 reads so far
2011-05-20 14:09:59,758 - INFO - Processed 70800000 reads so far
2011-05-20 14:10:08,566 - INFO - Processed 70900000 reads so far
2011-05-20 14:10:17,391 - INFO - Processed 71000000 reads so far
2011-05-20 14:10:25,423 - INFO - Processed 71100000 reads so far
2011-05-20 14:10:33,219 - INFO - Processed 71200000 reads so far
2011-05-20 14:10:40,945 - INFO - Processed 71300000 reads so far
2011-05-20 14:10:48,681 - INFO - Processed 71400000 reads so far
2011-05-20 14:10:56,517 - INFO - Processed 71500000 reads so far
2011-05-20 14:11:04,722 - INFO - Processed 71600000 reads so far
2011-05-20 14:11:12,241 - INFO - Processed 71700000 reads so far
2011-05-20 14:11:20,574 - INFO - Processed 71800000 reads so far
2011-05-20 14:11:28,895 - INFO - Processed 71900000 reads so far
2011-05-20 14:11:37,858 - INFO - Processed 72000000 reads so far
2011-05-20 14:11:45,283 - INFO - Processed 72100000 reads so far
2011-05-20 14:11:53,617 - INFO - Processed 72200000 reads so far
2011-05-20 14:12:01,825 - INFO - Processed 72300000 reads so far
2011-05-20 14:12:08,305 - INFO - Processed 72400000 reads so far
2011-05-20 14:12:15,583 - INFO - Processed 72500000 reads so far
2011-05-20 14:12:21,296 - INFO - Processed 72600000 reads so far
2011-05-20 14:12:27,581 - INFO - Processed 72700000 reads so far
2011-05-20 14:12:36,358 - INFO - Processed 72800000 reads so far
2011-05-20 14:12:45,317 - INFO - Processed 72900000 reads so far
2011-05-20 14:12:54,397 - INFO - Processed 73000000 reads so far
2011-05-20 14:13:01,199 - INFO - Processed 73100000 reads so far
2011-05-20 14:13:06,715 - INFO - Processed 73200000 reads so far
2011-05-20 14:13:13,737 - INFO - Processed 73300000 reads so far
2011-05-20 14:13:20,377 - INFO - Processed 73400000 reads so far
2011-05-20 14:13:28,642 - INFO - Processed 73500000 reads so far
2011-05-20 14:13:36,401 - INFO - Processed 73600000 reads so far
2011-05-20 14:13:45,960 - INFO - Processed 73700000 reads so far
2011-05-20 14:13:54,559 - INFO - Processed 73800000 reads so far
2011-05-20 14:14:03,605 - INFO - Processed 73900000 reads so far
2011-05-20 14:14:11,236 - INFO - Processed 74000000 reads so far
2011-05-20 14:14:20,794 - INFO - Processed 74100000 reads so far
2011-05-20 14:14:29,792 - INFO - Processed 74200000 reads so far
2011-05-20 14:14:38,679 - INFO - Processed 74300000 reads so far
2011-05-20 14:14:47,269 - INFO - Processed 74400000 reads so far
2011-05-20 14:14:57,858 - INFO - Processed 74500000 reads so far
2011-05-20 14:15:07,232 - INFO - Processed 74600000 reads so far
2011-05-20 14:15:16,173 - INFO - Processed 74700000 reads so far
2011-05-20 14:15:24,037 - INFO - Processed 74800000 reads so far
2011-05-20 14:15:32,957 - INFO - Processed 74900000 reads so far
2011-05-20 14:15:42,420 - INFO - Processed 75000000 reads so far
2011-05-20 14:15:51,880 - INFO - Processed 75100000 reads so far
2011-05-20 14:16:01,432 - INFO - Processed 75200000 reads so far
2011-05-20 14:16:10,863 - INFO - Processed 75300000 reads so far
2011-05-20 14:16:21,599 - INFO - Processed 75400000 reads so far
2011-05-20 14:16:30,922 - INFO - Processed 75500000 reads so far
2011-05-20 14:16:40,518 - INFO - Processed 75600000 reads so far
2011-05-20 14:16:50,200 - INFO - Processed 75700000 reads so far
2011-05-20 14:16:59,474 - INFO - Processed 75800000 reads so far
2011-05-20 14:17:08,826 - INFO - Processed 75900000 reads so far
2011-05-20 14:17:18,040 - INFO - Processed 76000000 reads so far
2011-05-20 14:17:27,444 - INFO - Processed 76100000 reads so far
2011-05-20 14:17:37,719 - INFO - Processed 76200000 reads so far
2011-05-20 14:17:47,005 - INFO - Processed 76300000 reads so far
2011-05-20 14:17:56,450 - INFO - Processed 76400000 reads so far
2011-05-20 14:18:05,838 - INFO - Processed 76500000 reads so far
2011-05-20 14:18:15,174 - INFO - Processed 76600000 reads so far
2011-05-20 14:18:24,587 - INFO - Processed 76700000 reads so far
2011-05-20 14:18:34,260 - INFO - Processed 76800000 reads so far
2011-05-20 14:18:43,660 - INFO - Processed 76900000 reads so far
2011-05-20 14:18:53,092 - INFO - Processed 77000000 reads so far
2011-05-20 14:19:02,525 - INFO - Processed 77100000 reads so far
2011-05-20 14:19:11,965 - INFO - Processed 77200000 reads so far
2011-05-20 14:19:21,298 - INFO - Processed 77300000 reads so far
2011-05-20 14:19:30,682 - INFO - Processed 77400000 reads so far
2011-05-20 14:19:40,097 - INFO - Processed 77500000 reads so far
2011-05-20 14:19:49,388 - INFO - Processed 77600000 reads so far
2011-05-20 14:19:59,090 - INFO - Processed 77700000 reads so far
2011-05-20 14:20:07,593 - INFO - Processed 77800000 reads so far
2011-05-20 14:20:16,253 - INFO - Processed 77900000 reads so far
2011-05-20 14:20:24,903 - INFO - Processed 78000000 reads so far
2011-05-20 14:20:34,206 - INFO - Processed 78100000 reads so far
2011-05-20 14:20:43,300 - INFO - Processed 78200000 reads so far
2011-05-20 14:20:54,240 - INFO - Processed 78300000 reads so far
2011-05-20 14:21:05,370 - INFO - Processed 78400000 reads so far
2011-05-20 14:21:06,357 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:102990163-123010163
2011-05-20 14:21:15,343 - INFO - Processed 78500000 reads so far
2011-05-20 14:21:26,326 - INFO - Processed 78600000 reads so far
2011-05-20 14:21:37,860 - INFO - Processed 78700000 reads so far
2011-05-20 14:21:48,537 - INFO - Processed 78800000 reads so far
2011-05-20 14:21:59,453 - INFO - Processed 78900000 reads so far
2011-05-20 14:22:10,199 - INFO - Processed 79000000 reads so far
2011-05-20 14:22:18,223 - INFO - Processed 79100000 reads so far
2011-05-20 14:22:25,072 - INFO - Processed 79200000 reads so far
2011-05-20 14:22:32,325 - INFO - Processed 79300000 reads so far
2011-05-20 14:22:39,361 - INFO - Processed 79400000 reads so far
2011-05-20 14:22:40,291 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:122990180-143010180
2011-05-20 14:22:46,258 - INFO - Processed 79500000 reads so far
2011-05-20 14:22:53,224 - INFO - Processed 79600000 reads so far
2011-05-20 14:23:00,090 - INFO - Processed 79700000 reads so far
2011-05-20 14:23:07,023 - INFO - Processed 79800000 reads so far
2011-05-20 14:23:14,044 - INFO - Processed 79900000 reads so far
2011-05-20 14:23:22,817 - INFO - Processed 80000000 reads so far
2011-05-20 14:23:29,867 - INFO - Processed 80100000 reads so far
2011-05-20 14:23:36,798 - INFO - Processed 80200000 reads so far
2011-05-20 14:23:43,657 - INFO - Processed 80300000 reads so far
2011-05-20 14:23:50,412 - INFO - Processed 80400000 reads so far
2011-05-20 14:23:53,421 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:142990196-163010196
2011-05-20 14:23:57,644 - INFO - Processed 80500000 reads so far
2011-05-20 14:24:07,972 - INFO - Processed 80600000 reads so far
2011-05-20 14:24:15,062 - INFO - Processed 80700000 reads so far
2011-05-20 14:24:21,964 - INFO - Processed 80800000 reads so far
2011-05-20 14:24:29,355 - INFO - Processed 80900000 reads so far
2011-05-20 14:24:38,097 - INFO - Processed 81000000 reads so far
2011-05-20 14:24:48,807 - INFO - Processed 81100000 reads so far
2011-05-20 14:24:58,501 - INFO - Processed 81200000 reads so far
2011-05-20 14:25:08,380 - INFO - Processed 81300000 reads so far
2011-05-20 14:25:18,375 - INFO - Processed 81400000 reads so far
2011-05-20 14:25:28,746 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:162990263-183010263
2011-05-20 14:25:28,955 - INFO - Processed 81500000 reads so far
2011-05-20 14:25:43,166 - INFO - Processed 81600000 reads so far
2011-05-20 14:25:53,961 - INFO - Processed 81700000 reads so far
2011-05-20 14:26:05,146 - INFO - Processed 81800000 reads so far
2011-05-20 14:26:16,073 - INFO - Processed 81900000 reads so far
2011-05-20 14:26:26,576 - INFO - Processed 82000000 reads so far
2011-05-20 14:26:36,849 - INFO - Processed 82100000 reads so far
2011-05-20 14:26:44,447 - INFO - Processed 82200000 reads so far
2011-05-20 14:26:52,519 - INFO - Processed 82300000 reads so far
2011-05-20 14:27:02,978 - INFO - Processed 82400000 reads so far
2011-05-20 14:27:12,191 - INFO - Processed 82500000 reads so far
2011-05-20 14:27:18,183 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:2989999-23009999
2011-05-20 14:27:20,028 - INFO - Processed 82600000 reads so far
2011-05-20 14:27:32,551 - INFO - Processed 82700000 reads so far
2011-05-20 14:27:39,576 - INFO - Processed 82800000 reads so far
2011-05-20 14:27:47,176 - INFO - Processed 82900000 reads so far
2011-05-20 14:27:56,042 - INFO - Processed 83000000 reads so far
2011-05-20 14:28:06,019 - INFO - Processed 83100000 reads so far
2011-05-20 14:28:16,939 - INFO - Processed 83200000 reads so far
2011-05-20 14:28:27,543 - INFO - Processed 83300000 reads so far
2011-05-20 14:28:38,044 - INFO - Processed 83400000 reads so far
2011-05-20 14:28:48,597 - INFO - Processed 83500000 reads so far
2011-05-20 14:28:57,100 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:22990022-43010022
2011-05-20 14:28:59,424 - INFO - Processed 83600000 reads so far
2011-05-20 14:29:08,848 - INFO - Processed 83700000 reads so far
2011-05-20 14:29:19,500 - INFO - Processed 83800000 reads so far
2011-05-20 14:29:30,249 - INFO - Processed 83900000 reads so far
2011-05-20 14:29:40,995 - INFO - Processed 84000000 reads so far
2011-05-20 14:29:49,307 - INFO - Processed 84100000 reads so far
2011-05-20 14:29:59,932 - INFO - Processed 84200000 reads so far
2011-05-20 14:30:09,923 - INFO - Processed 84300000 reads so far
2011-05-20 14:30:17,103 - INFO - Processed 84400000 reads so far
2011-05-20 14:30:25,136 - INFO - Processed 84500000 reads so far
2011-05-20 14:30:32,985 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:42990029-63010029
2011-05-20 14:30:33,425 - INFO - Processed 84600000 reads so far
2011-05-20 14:30:43,851 - INFO - Processed 84700000 reads so far
2011-05-20 14:30:55,324 - INFO - Processed 84800000 reads so far
2011-05-20 14:31:13,989 - INFO - Processed 84900000 reads so far
2011-05-20 14:31:38,078 - INFO - Processed 85000000 reads so far
2011-05-20 14:31:45,768 - INFO - Processed 85100000 reads so far
2011-05-20 14:31:54,166 - INFO - Processed 85200000 reads so far
2011-05-20 14:32:01,836 - INFO - Processed 85300000 reads so far
2011-05-20 14:32:09,569 - INFO - Processed 85400000 reads so far
2011-05-20 14:32:17,590 - INFO - Processed 85500000 reads so far
2011-05-20 14:32:22,929 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:62990111-83010111
2011-05-20 14:32:24,791 - INFO - Processed 85600000 reads so far
2011-05-20 14:32:32,703 - INFO - Processed 85700000 reads so far
2011-05-20 14:32:41,630 - INFO - Processed 85800000 reads so far
2011-05-20 14:32:52,423 - INFO - Processed 85900000 reads so far
2011-05-20 14:32:59,972 - INFO - Processed 86000000 reads so far
2011-05-20 14:33:09,138 - INFO - Processed 86100000 reads so far
2011-05-20 14:33:20,134 - INFO - Processed 86200000 reads so far
2011-05-20 14:33:30,607 - INFO - Processed 86300000 reads so far
2011-05-20 14:33:41,721 - INFO - Processed 86400000 reads so far
2011-05-20 14:33:52,063 - INFO - Processed 86500000 reads so far
2011-05-20 14:33:57,904 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:82990130-103010130
2011-05-20 14:34:03,296 - INFO - Processed 86600000 reads so far
2011-05-20 14:34:14,499 - INFO - Processed 86700000 reads so far
2011-05-20 14:34:24,844 - INFO - Processed 86800000 reads so far
2011-05-20 14:34:35,569 - INFO - Processed 86900000 reads so far
2011-05-20 14:34:46,753 - INFO - Processed 87000000 reads so far
2011-05-20 14:34:54,942 - INFO - Processed 87100000 reads so far
2011-05-20 14:35:05,199 - INFO - Processed 87200000 reads so far
2011-05-20 14:35:13,705 - INFO - Processed 87300000 reads so far
2011-05-20 14:35:23,455 - INFO - Processed 87400000 reads so far
2011-05-20 14:35:33,278 - INFO - Processed 87500000 reads so far
2011-05-20 14:35:41,593 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:102990144-123010144
2011-05-20 14:35:42,298 - INFO - Processed 87600000 reads so far
2011-05-20 14:35:51,485 - INFO - Processed 87700000 reads so far
2011-05-20 14:36:01,781 - INFO - Processed 87800000 reads so far
2011-05-20 14:36:12,224 - INFO - Processed 87900000 reads so far
2011-05-20 14:36:22,826 - INFO - Processed 88000000 reads so far
2011-05-20 14:36:32,367 - INFO - Processed 88100000 reads so far
2011-05-20 14:36:43,017 - INFO - Processed 88200000 reads so far
2011-05-20 14:36:51,142 - INFO - Processed 88300000 reads so far
2011-05-20 14:37:01,276 - INFO - Processed 88400000 reads so far
2011-05-20 14:37:12,317 - INFO - Processed 88500000 reads so far
2011-05-20 14:37:21,872 - INFO - Processed 88600000 reads so far
2011-05-20 14:37:21,891 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:122990175-143010175
2011-05-20 14:37:31,340 - INFO - Processed 88700000 reads so far
2011-05-20 14:37:41,552 - INFO - Processed 88800000 reads so far
2011-05-20 14:37:51,431 - INFO - Processed 88900000 reads so far
2011-05-20 14:38:02,270 - INFO - Processed 89000000 reads so far
2011-05-20 14:38:12,569 - INFO - Processed 89100000 reads so far
2011-05-20 14:38:22,955 - INFO - Processed 89200000 reads so far
2011-05-20 14:38:33,695 - INFO - Processed 89300000 reads so far
2011-05-20 14:38:43,406 - INFO - Processed 89400000 reads so far
2011-05-20 14:38:54,572 - INFO - Processed 89500000 reads so far
2011-05-20 14:39:05,392 - INFO - Processed 89600000 reads so far
2011-05-20 14:39:05,511 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:142990219-163010219
2011-05-20 14:39:15,306 - INFO - Processed 89700000 reads so far
2011-05-20 14:39:23,630 - INFO - Processed 89800000 reads so far
2011-05-20 14:39:32,382 - INFO - Processed 89900000 reads so far
2011-05-20 14:39:43,995 - INFO - Processed 90000000 reads so far
2011-05-20 14:39:52,849 - INFO - Processed 90100000 reads so far
2011-05-20 14:40:01,242 - INFO - Processed 90200000 reads so far
2011-05-20 14:40:09,254 - INFO - Processed 90300000 reads so far
2011-05-20 14:40:17,323 - INFO - Processed 90400000 reads so far
2011-05-20 14:40:21,383 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3_random:0-20010023
2011-05-20 14:40:21,489 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:2989976-23009976
2011-05-20 14:40:24,989 - INFO - Processed 90500000 reads so far
2011-05-20 14:40:35,536 - INFO - Processed 90600000 reads so far
2011-05-20 14:40:44,198 - INFO - Processed 90700000 reads so far
2011-05-20 14:40:56,064 - INFO - Processed 90800000 reads so far
2011-05-20 14:41:04,942 - INFO - Processed 90900000 reads so far
2011-05-20 14:41:16,542 - INFO - Processed 91000000 reads so far
2011-05-20 14:41:27,187 - INFO - Processed 91100000 reads so far
2011-05-20 14:41:35,556 - INFO - Processed 91200000 reads so far
2011-05-20 14:41:44,095 - INFO - Processed 91300000 reads so far
2011-05-20 14:41:52,546 - INFO - Processed 91400000 reads so far
2011-05-20 14:41:59,794 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:22990003-43010003
2011-05-20 14:42:01,387 - INFO - Processed 91500000 reads so far
2011-05-20 14:42:12,807 - INFO - Processed 91600000 reads so far
2011-05-20 14:42:20,949 - INFO - Processed 91700000 reads so far
2011-05-20 14:42:29,011 - INFO - Processed 91800000 reads so far
2011-05-20 14:42:37,154 - INFO - Processed 91900000 reads so far
2011-05-20 14:42:45,639 - INFO - Processed 92000000 reads so far
2011-05-20 14:42:54,548 - INFO - Processed 92100000 reads so far
2011-05-20 14:43:02,595 - INFO - Processed 92200000 reads so far
2011-05-20 14:43:10,746 - INFO - Processed 92300000 reads so far
2011-05-20 14:43:19,378 - INFO - Processed 92400000 reads so far
2011-05-20 14:43:27,919 - INFO - Processed 92500000 reads so far
2011-05-20 14:43:28,553 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:42990006-63010006
2011-05-20 14:43:39,416 - INFO - Processed 92600000 reads so far
2011-05-20 14:43:49,566 - INFO - Processed 92700000 reads so far
2011-05-20 14:43:59,674 - INFO - Processed 92800000 reads so far
2011-05-20 14:44:10,479 - INFO - Processed 92900000 reads so far
2011-05-20 14:44:20,993 - INFO - Processed 93000000 reads so far
2011-05-20 14:44:31,723 - INFO - Processed 93100000 reads so far
2011-05-20 14:44:40,240 - INFO - Processed 93200000 reads so far
2011-05-20 14:44:51,469 - INFO - Processed 93300000 reads so far
2011-05-20 14:45:03,418 - INFO - Processed 93400000 reads so far
2011-05-20 14:45:14,155 - INFO - Processed 93500000 reads so far
2011-05-20 14:45:19,259 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:62990029-83010029
2011-05-20 14:45:28,138 - INFO - Processed 93600000 reads so far
2011-05-20 14:45:38,691 - INFO - Processed 93700000 reads so far
2011-05-20 14:45:49,779 - INFO - Processed 93800000 reads so far
2011-05-20 14:46:00,502 - INFO - Processed 93900000 reads so far
2011-05-20 14:46:13,689 - INFO - Processed 94000000 reads so far
2011-05-20 14:46:20,984 - INFO - Processed 94100000 reads so far
2011-05-20 14:46:28,884 - INFO - Processed 94200000 reads so far
2011-05-20 14:46:36,578 - INFO - Processed 94300000 reads so far
2011-05-20 14:46:50,320 - INFO - Processed 94400000 reads so far
2011-05-20 14:46:58,238 - INFO - Processed 94500000 reads so far
2011-05-20 14:47:01,320 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:82990145-103010145
2011-05-20 14:47:06,208 - INFO - Processed 94600000 reads so far
2011-05-20 14:47:12,976 - INFO - Processed 94700000 reads so far
2011-05-20 14:47:20,354 - INFO - Processed 94800000 reads so far
2011-05-20 14:47:28,076 - INFO - Processed 94900000 reads so far
2011-05-20 14:47:36,406 - INFO - Processed 95000000 reads so far
2011-05-20 14:47:43,071 - INFO - Processed 95100000 reads so far
2011-05-20 14:47:49,872 - INFO - Processed 95200000 reads so far
2011-05-20 14:47:56,651 - INFO - Processed 95300000 reads so far
2011-05-20 14:48:04,163 - INFO - Processed 95400000 reads so far
2011-05-20 14:48:11,861 - INFO - Processed 95500000 reads so far
2011-05-20 14:48:16,280 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:102990146-123010146
2011-05-20 14:48:19,472 - INFO - Processed 95600000 reads so far
2011-05-20 14:48:28,797 - INFO - Processed 95700000 reads so far
2011-05-20 14:48:35,638 - INFO - Processed 95800000 reads so far
2011-05-20 14:48:42,545 - INFO - Processed 95900000 reads so far
2011-05-20 14:48:49,322 - INFO - Processed 96000000 reads so far
2011-05-20 14:48:56,238 - INFO - Processed 96100000 reads so far
2011-05-20 14:49:04,262 - INFO - Processed 96200000 reads so far
2011-05-20 14:49:12,759 - INFO - Processed 96300000 reads so far
2011-05-20 14:49:22,887 - INFO - Processed 96400000 reads so far
2011-05-20 14:49:33,807 - INFO - Processed 96500000 reads so far
2011-05-20 14:49:39,907 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:122990175-143010175
2011-05-20 14:49:42,531 - INFO - Processed 96600000 reads so far
2011-05-20 14:49:50,711 - INFO - Processed 96700000 reads so far
2011-05-20 14:49:57,610 - INFO - Processed 96800000 reads so far
2011-05-20 14:50:05,936 - INFO - Processed 96900000 reads so far
2011-05-20 14:50:16,372 - INFO - Processed 97000000 reads so far
2011-05-20 14:50:27,506 - INFO - Processed 97100000 reads so far
2011-05-20 14:50:35,063 - INFO - Processed 97200000 reads so far
2011-05-20 14:50:48,295 - INFO - Processed 97300000 reads so far
2011-05-20 14:51:00,706 - INFO - Processed 97400000 reads so far
2011-05-20 14:51:14,229 - INFO - Processed 97500000 reads so far
2011-05-20 14:51:28,346 - INFO - Processed 97600000 reads so far
2011-05-20 14:51:35,077 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:142990196-163010196
2011-05-20 14:51:40,564 - INFO - Processed 97700000 reads so far
2011-05-20 14:51:53,348 - INFO - Processed 97800000 reads so far
2011-05-20 14:52:02,589 - INFO - Processed 97900000 reads so far
2011-05-20 14:52:11,819 - INFO - Processed 98000000 reads so far
2011-05-20 14:52:22,763 - INFO - Processed 98100000 reads so far
2011-05-20 14:52:33,143 - INFO - Processed 98200000 reads so far
2011-05-20 14:52:43,965 - INFO - Processed 98300000 reads so far
2011-05-20 14:52:55,388 - INFO - Processed 98400000 reads so far
2011-05-20 14:52:56,428 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4_random:0-20010284
2011-05-20 14:52:57,099 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:2990006-23010006
2011-05-20 14:53:06,146 - INFO - Processed 98500000 reads so far
2011-05-20 14:53:17,114 - INFO - Processed 98600000 reads so far
2011-05-20 14:53:28,144 - INFO - Processed 98700000 reads so far
2011-05-20 14:53:39,338 - INFO - Processed 98800000 reads so far
2011-05-20 14:53:49,978 - INFO - Processed 98900000 reads so far
2011-05-20 14:53:58,333 - INFO - Processed 99000000 reads so far
2011-05-20 14:54:08,926 - INFO - Processed 99100000 reads so far
2011-05-20 14:54:18,065 - INFO - Processed 99200000 reads so far
2011-05-20 14:54:24,810 - INFO - Processed 99300000 reads so far
2011-05-20 14:54:36,168 - INFO - Processed 99400000 reads so far
2011-05-20 14:54:38,040 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:22990028-43010028
2011-05-20 14:54:45,300 - INFO - Processed 99500000 reads so far
2011-05-20 14:54:52,839 - INFO - Processed 99600000 reads so far
2011-05-20 14:54:59,590 - INFO - Processed 99700000 reads so far
2011-05-20 14:55:06,536 - INFO - Processed 99800000 reads so far
2011-05-20 14:55:17,985 - INFO - Processed 99900000 reads so far
2011-05-20 14:55:28,878 - INFO - Processed 100000000 reads so far
2011-05-20 14:55:40,037 - INFO - Processed 100100000 reads so far
2011-05-20 14:55:51,115 - INFO - Processed 100200000 reads so far
2011-05-20 14:56:02,340 - INFO - Processed 100300000 reads so far
2011-05-20 14:56:13,604 - INFO - Processed 100400000 reads so far
2011-05-20 14:56:22,325 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:42990036-63010036
2011-05-20 14:56:24,996 - INFO - Processed 100500000 reads so far
2011-05-20 14:56:36,118 - INFO - Processed 100600000 reads so far
2011-05-20 14:56:47,457 - INFO - Processed 100700000 reads so far
2011-05-20 14:56:58,792 - INFO - Processed 100800000 reads so far
2011-05-20 14:57:09,821 - INFO - Processed 100900000 reads so far
2011-05-20 14:57:20,914 - INFO - Processed 101000000 reads so far
2011-05-20 14:57:32,242 - INFO - Processed 101100000 reads so far
2011-05-20 14:57:42,348 - INFO - Processed 101200000 reads so far
2011-05-20 14:57:52,315 - INFO - Processed 101300000 reads so far
2011-05-20 14:58:01,711 - INFO - Processed 101400000 reads so far
2011-05-20 14:58:07,903 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:62990089-83010089
2011-05-20 14:58:12,202 - INFO - Processed 101500000 reads so far
2011-05-20 14:58:22,729 - INFO - Processed 101600000 reads so far
2011-05-20 14:58:32,622 - INFO - Processed 101700000 reads so far
2011-05-20 14:58:44,521 - INFO - Processed 101800000 reads so far
2011-05-20 14:58:55,687 - INFO - Processed 101900000 reads so far
2011-05-20 14:59:08,759 - INFO - Processed 102000000 reads so far
2011-05-20 14:59:19,799 - INFO - Processed 102100000 reads so far
2011-05-20 14:59:31,971 - INFO - Processed 102200000 reads so far
2011-05-20 14:59:43,137 - INFO - Processed 102300000 reads so far
2011-05-20 14:59:55,656 - INFO - Processed 102400000 reads so far
2011-05-20 15:00:01,818 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:82990092-103010092
2011-05-20 15:00:06,812 - INFO - Processed 102500000 reads so far
2011-05-20 15:00:18,006 - INFO - Processed 102600000 reads so far
2011-05-20 15:00:29,329 - INFO - Processed 102700000 reads so far
2011-05-20 15:00:40,564 - INFO - Processed 102800000 reads so far
2011-05-20 15:00:52,937 - INFO - Processed 102900000 reads so far
2011-05-20 15:01:04,675 - INFO - Processed 103000000 reads so far
2011-05-20 15:01:16,506 - INFO - Processed 103100000 reads so far
2011-05-20 15:01:27,819 - INFO - Processed 103200000 reads so far
2011-05-20 15:01:38,710 - INFO - Processed 103300000 reads so far
2011-05-20 15:01:48,707 - INFO - Processed 103400000 reads so far
2011-05-20 15:01:50,053 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:102990104-123010104
2011-05-20 15:02:00,613 - INFO - Processed 103500000 reads so far
2011-05-20 15:02:11,239 - INFO - Processed 103600000 reads so far
2011-05-20 15:02:21,655 - INFO - Processed 103700000 reads so far
2011-05-20 15:02:34,881 - INFO - Processed 103800000 reads so far
2011-05-20 15:02:46,721 - INFO - Processed 103900000 reads so far
2011-05-20 15:02:58,016 - INFO - Processed 104000000 reads so far
2011-05-20 15:03:09,442 - INFO - Processed 104100000 reads so far
2011-05-20 15:03:19,980 - INFO - Processed 104200000 reads so far
2011-05-20 15:03:31,890 - INFO - Processed 104300000 reads so far
2011-05-20 15:03:42,832 - INFO - Processed 104400000 reads so far
2011-05-20 15:03:53,144 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:122990106-143010106
2011-05-20 15:03:54,019 - INFO - Processed 104500000 reads so far
2011-05-20 15:04:05,272 - INFO - Processed 104600000 reads so far
2011-05-20 15:04:15,847 - INFO - Processed 104700000 reads so far
2011-05-20 15:04:22,813 - INFO - Processed 104800000 reads so far
2011-05-20 15:04:34,037 - INFO - Processed 104900000 reads so far
2011-05-20 15:04:46,486 - INFO - Processed 105000000 reads so far
2011-05-20 15:04:57,885 - INFO - Processed 105100000 reads so far
2011-05-20 15:05:09,842 - INFO - Processed 105200000 reads so far
2011-05-20 15:05:20,750 - INFO - Processed 105300000 reads so far
2011-05-20 15:05:30,997 - INFO - Processed 105400000 reads so far
2011-05-20 15:05:40,752 - INFO - Processed 105500000 reads so far
2011-05-20 15:05:46,908 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:142990123-163010123
2011-05-20 15:05:52,052 - INFO - Processed 105600000 reads so far
2011-05-20 15:06:03,422 - INFO - Processed 105700000 reads so far
2011-05-20 15:06:15,811 - INFO - Processed 105800000 reads so far
2011-05-20 15:06:26,949 - INFO - Processed 105900000 reads so far
2011-05-20 15:06:38,037 - INFO - Processed 106000000 reads so far
2011-05-20 15:06:43,956 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5_random:0-20010306
2011-05-20 15:06:44,425 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:2989976-23009976
2011-05-20 15:06:51,085 - INFO - Processed 106100000 reads so far
2011-05-20 15:07:01,717 - INFO - Processed 106200000 reads so far
2011-05-20 15:07:12,307 - INFO - Processed 106300000 reads so far
2011-05-20 15:07:22,793 - INFO - Processed 106400000 reads so far
2011-05-20 15:07:31,655 - INFO - Processed 106500000 reads so far
2011-05-20 15:07:42,273 - INFO - Processed 106600000 reads so far
2011-05-20 15:07:53,426 - INFO - Processed 106700000 reads so far
2011-05-20 15:08:02,874 - INFO - Processed 106800000 reads so far
2011-05-20 15:08:14,805 - INFO - Processed 106900000 reads so far
2011-05-20 15:08:24,328 - INFO - Processed 107000000 reads so far
2011-05-20 15:08:29,187 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:22989978-43009978
2011-05-20 15:08:35,472 - INFO - Processed 107100000 reads so far
2011-05-20 15:08:44,174 - INFO - Processed 107200000 reads so far
2011-05-20 15:08:55,681 - INFO - Processed 107300000 reads so far
2011-05-20 15:09:04,175 - INFO - Processed 107400000 reads so far
2011-05-20 15:09:13,219 - INFO - Processed 107500000 reads so far
2011-05-20 15:09:35,332 - INFO - Processed 107600000 reads so far
2011-05-20 15:09:46,518 - INFO - Processed 107700000 reads so far
2011-05-20 15:09:56,976 - INFO - Processed 107800000 reads so far
2011-05-20 15:10:23,470 - INFO - Processed 107900000 reads so far
2011-05-20 15:10:37,682 - INFO - Processed 108000000 reads so far
2011-05-20 15:10:45,665 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:42989991-63009991
2011-05-20 15:10:47,477 - INFO - Processed 108100000 reads so far
2011-05-20 15:10:53,962 - INFO - Processed 108200000 reads so far
2011-05-20 15:11:00,645 - INFO - Processed 108300000 reads so far
2011-05-20 15:11:10,817 - INFO - Processed 108400000 reads so far
2011-05-20 15:11:19,423 - INFO - Processed 108500000 reads so far
2011-05-20 15:11:28,799 - INFO - Processed 108600000 reads so far
2011-05-20 15:11:39,958 - INFO - Processed 108700000 reads so far
2011-05-20 15:11:50,226 - INFO - Processed 108800000 reads so far
2011-05-20 15:11:58,444 - INFO - Processed 108900000 reads so far
2011-05-20 15:12:08,280 - INFO - Processed 109000000 reads so far
2011-05-20 15:12:17,559 - INFO - Processed 109100000 reads so far
2011-05-20 15:12:25,779 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:62990073-83010073
2011-05-20 15:12:27,724 - INFO - Processed 109200000 reads so far
2011-05-20 15:12:35,317 - INFO - Processed 109300000 reads so far
2011-05-20 15:12:42,768 - INFO - Processed 109400000 reads so far
2011-05-20 15:12:50,412 - INFO - Processed 109500000 reads so far
2011-05-20 15:12:58,100 - INFO - Processed 109600000 reads so far
2011-05-20 15:13:06,451 - INFO - Processed 109700000 reads so far
2011-05-20 15:13:13,919 - INFO - Processed 109800000 reads so far
2011-05-20 15:13:23,172 - INFO - Processed 109900000 reads so far
2011-05-20 15:13:33,855 - INFO - Processed 110000000 reads so far
2011-05-20 15:13:42,050 - INFO - Processed 110100000 reads so far
2011-05-20 15:13:47,233 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:82990094-103010094
2011-05-20 15:13:53,028 - INFO - Processed 110200000 reads so far
2011-05-20 15:14:02,600 - INFO - Processed 110300000 reads so far
2011-05-20 15:14:13,540 - INFO - Processed 110400000 reads so far
2011-05-20 15:14:22,324 - INFO - Processed 110500000 reads so far
2011-05-20 15:14:31,239 - INFO - Processed 110600000 reads so far
2011-05-20 15:14:40,915 - INFO - Processed 110700000 reads so far
2011-05-20 15:14:51,808 - INFO - Processed 110800000 reads so far
2011-05-20 15:15:01,079 - INFO - Processed 110900000 reads so far
2011-05-20 15:15:09,604 - INFO - Processed 111000000 reads so far
2011-05-20 15:15:19,365 - INFO - Processed 111100000 reads so far
2011-05-20 15:15:31,247 - INFO - Processed 111200000 reads so far
2011-05-20 15:15:32,910 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:102990127-123010127
2011-05-20 15:15:41,753 - INFO - Processed 111300000 reads so far
2011-05-20 15:15:51,267 - INFO - Processed 111400000 reads so far
2011-05-20 15:16:01,406 - INFO - Processed 111500000 reads so far
2011-05-20 15:16:11,278 - INFO - Processed 111600000 reads so far
2011-05-20 15:16:20,795 - INFO - Processed 111700000 reads so far
2011-05-20 15:16:30,842 - INFO - Processed 111800000 reads so far
2011-05-20 15:16:40,640 - INFO - Processed 111900000 reads so far
2011-05-20 15:16:49,927 - INFO - Processed 112000000 reads so far
2011-05-20 15:16:59,461 - INFO - Processed 112100000 reads so far
2011-05-20 15:17:09,110 - INFO - Processed 112200000 reads so far
2011-05-20 15:17:18,596 - INFO - Processed 112300000 reads so far
2011-05-20 15:17:31,474 - INFO - Processed 112400000 reads so far
2011-05-20 15:17:44,148 - INFO - Processed 112500000 reads so far
2011-05-20 15:17:55,060 - INFO - Processed 112600000 reads so far
2011-05-20 15:18:06,769 - INFO - Processed 112700000 reads so far
2011-05-20 15:18:18,170 - INFO - Processed 112800000 reads so far
2011-05-20 15:18:29,725 - INFO - Processed 112900000 reads so far
2011-05-20 15:18:41,774 - INFO - Processed 113000000 reads so far
2011-05-20 15:18:54,753 - INFO - Processed 113100000 reads so far
2011-05-20 15:19:04,112 - INFO - Processed 113200000 reads so far
2011-05-20 15:19:06,224 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:122990160-143010160
2011-05-20 15:19:14,559 - INFO - Processed 113300000 reads so far
2011-05-20 15:19:25,154 - INFO - Processed 113400000 reads so far
2011-05-20 15:19:35,095 - INFO - Processed 113500000 reads so far
2011-05-20 15:19:45,909 - INFO - Processed 113600000 reads so far
2011-05-20 15:19:55,566 - INFO - Processed 113700000 reads so far
2011-05-20 15:20:06,885 - INFO - Processed 113800000 reads so far
2011-05-20 15:20:17,105 - INFO - Processed 113900000 reads so far
2011-05-20 15:20:26,495 - INFO - Processed 114000000 reads so far
2011-05-20 15:20:36,179 - INFO - Processed 114100000 reads so far
2011-05-20 15:20:47,267 - INFO - Processed 114200000 reads so far
2011-05-20 15:20:55,773 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:142990180-163010180
2011-05-20 15:20:59,336 - INFO - Processed 114300000 reads so far
2011-05-20 15:21:10,142 - INFO - Processed 114400000 reads so far
2011-05-20 15:21:22,131 - INFO - Processed 114500000 reads so far
2011-05-20 15:21:33,499 - INFO - Processed 114600000 reads so far
2011-05-20 15:21:34,611 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:2990001-23010001
2011-05-20 15:21:45,873 - INFO - Processed 114700000 reads so far
2011-05-20 15:21:56,537 - INFO - Processed 114800000 reads so far
2011-05-20 15:22:08,585 - INFO - Processed 114900000 reads so far
2011-05-20 15:22:18,634 - INFO - Processed 115000000 reads so far
2011-05-20 15:22:31,076 - INFO - Processed 115100000 reads so far
2011-05-20 15:22:42,297 - INFO - Processed 115200000 reads so far
2011-05-20 15:22:52,519 - INFO - Processed 115300000 reads so far
2011-05-20 15:23:03,130 - INFO - Processed 115400000 reads so far
2011-05-20 15:23:13,984 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:22990042-43010042
2011-05-20 15:23:14,215 - INFO - Processed 115500000 reads so far
2011-05-20 15:23:23,997 - INFO - Processed 115600000 reads so far
2011-05-20 15:23:35,261 - INFO - Processed 115700000 reads so far
2011-05-20 15:23:46,066 - INFO - Processed 115800000 reads so far
2011-05-20 15:23:57,486 - INFO - Processed 115900000 reads so far
2011-05-20 15:24:07,667 - INFO - Processed 116000000 reads so far
2011-05-20 15:24:18,828 - INFO - Processed 116100000 reads so far
2011-05-20 15:24:29,398 - INFO - Processed 116200000 reads so far
2011-05-20 15:24:40,638 - INFO - Processed 116300000 reads so far
2011-05-20 15:24:41,440 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:46348750-66368750
2011-05-20 15:24:50,578 - INFO - Processed 116400000 reads so far
2011-05-20 15:24:58,852 - INFO - Processed 116500000 reads so far
2011-05-20 15:25:08,662 - INFO - Processed 116600000 reads so far
2011-05-20 15:25:19,208 - INFO - Processed 116700000 reads so far
2011-05-20 15:25:28,954 - INFO - Processed 116800000 reads so far
2011-05-20 15:25:40,584 - INFO - Processed 116900000 reads so far
2011-05-20 15:25:52,303 - INFO - Processed 117000000 reads so far
2011-05-20 15:26:03,467 - INFO - Processed 117100000 reads so far
2011-05-20 15:26:15,317 - INFO - Processed 117200000 reads so far
2011-05-20 15:26:27,029 - INFO - Processed 117300000 reads so far
2011-05-20 15:26:32,063 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:66348803-86368803
2011-05-20 15:26:36,574 - INFO - Processed 117400000 reads so far
2011-05-20 15:26:45,987 - INFO - Processed 117500000 reads so far
2011-05-20 15:26:54,720 - INFO - Processed 117600000 reads so far
2011-05-20 15:27:05,205 - INFO - Processed 117700000 reads so far
2011-05-20 15:27:16,099 - INFO - Processed 117800000 reads so far
2011-05-20 15:27:27,318 - INFO - Processed 117900000 reads so far
2011-05-20 15:27:39,295 - INFO - Processed 118000000 reads so far
2011-05-20 15:27:51,065 - INFO - Processed 118100000 reads so far
2011-05-20 15:28:02,399 - INFO - Processed 118200000 reads so far
2011-05-20 15:28:13,749 - INFO - Processed 118300000 reads so far
2011-05-20 15:28:23,227 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:86348823-106368823
2011-05-20 15:28:23,699 - INFO - Processed 118400000 reads so far
2011-05-20 15:28:33,150 - INFO - Processed 118500000 reads so far
2011-05-20 15:28:42,767 - INFO - Processed 118600000 reads so far
2011-05-20 15:28:53,124 - INFO - Processed 118700000 reads so far
2011-05-20 15:29:02,247 - INFO - Processed 118800000 reads so far
2011-05-20 15:29:12,897 - INFO - Processed 118900000 reads so far
2011-05-20 15:29:22,008 - INFO - Processed 119000000 reads so far
2011-05-20 15:29:31,576 - INFO - Processed 119100000 reads so far
2011-05-20 15:29:41,264 - INFO - Processed 119200000 reads so far
2011-05-20 15:29:49,538 - INFO - Processed 119300000 reads so far
2011-05-20 15:29:58,463 - INFO - Processed 119400000 reads so far
2011-05-20 15:30:00,188 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:106348847-126368847
2011-05-20 15:30:07,370 - INFO - Processed 119500000 reads so far
2011-05-20 15:30:17,943 - INFO - Processed 119600000 reads so far
2011-05-20 15:30:25,904 - INFO - Processed 119700000 reads so far
2011-05-20 15:30:34,543 - INFO - Processed 119800000 reads so far
2011-05-20 15:30:42,758 - INFO - Processed 119900000 reads so far
2011-05-20 15:30:51,897 - INFO - Processed 120000000 reads so far
2011-05-20 15:31:00,368 - INFO - Processed 120100000 reads so far
2011-05-20 15:31:09,177 - INFO - Processed 120200000 reads so far
2011-05-20 15:31:17,844 - INFO - Processed 120300000 reads so far
2011-05-20 15:31:26,232 - INFO - Processed 120400000 reads so far
2011-05-20 15:31:30,086 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:126348877-146368877
2011-05-20 15:31:34,460 - INFO - Processed 120500000 reads so far
2011-05-20 15:31:43,000 - INFO - Processed 120600000 reads so far
2011-05-20 15:31:51,120 - INFO - Processed 120700000 reads so far
2011-05-20 15:31:59,440 - INFO - Processed 120800000 reads so far
2011-05-20 15:32:08,152 - INFO - Processed 120900000 reads so far
2011-05-20 15:32:17,605 - INFO - Processed 121000000 reads so far
2011-05-20 15:32:26,137 - INFO - Processed 121100000 reads so far
2011-05-20 15:32:34,385 - INFO - Processed 121200000 reads so far
2011-05-20 15:32:43,789 - INFO - Processed 121300000 reads so far
2011-05-20 15:32:52,837 - INFO - Processed 121400000 reads so far
2011-05-20 15:33:01,487 - INFO - Processed 121500000 reads so far
2011-05-20 15:33:03,300 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:146348886-166368886
2011-05-20 15:33:10,035 - INFO - Processed 121600000 reads so far
2011-05-20 15:33:18,647 - INFO - Processed 121700000 reads so far
2011-05-20 15:33:27,014 - INFO - Processed 121800000 reads so far
2011-05-20 15:33:35,289 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7_random:0-20010007
2011-05-20 15:33:36,796 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:2990013-23010013
2011-05-20 15:33:37,330 - INFO - Processed 121900000 reads so far
2011-05-20 15:33:46,068 - INFO - Processed 122000000 reads so far
2011-05-20 15:33:54,380 - INFO - Processed 122100000 reads so far
2011-05-20 15:34:04,813 - INFO - Processed 122200000 reads so far
2011-05-20 15:34:12,679 - INFO - Processed 122300000 reads so far
2011-05-20 15:34:19,747 - INFO - Processed 122400000 reads so far
2011-05-20 15:34:27,099 - INFO - Processed 122500000 reads so far
2011-05-20 15:34:35,416 - INFO - Processed 122600000 reads so far
2011-05-20 15:34:43,726 - INFO - Processed 122700000 reads so far
2011-05-20 15:34:51,490 - INFO - Processed 122800000 reads so far
2011-05-20 15:34:58,102 - INFO - Processed 122900000 reads so far
2011-05-20 15:35:04,818 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:22990052-43010052
2011-05-20 15:35:05,731 - INFO - Processed 123000000 reads so far
2011-05-20 15:35:14,367 - INFO - Processed 123100000 reads so far
2011-05-20 15:35:22,330 - INFO - Processed 123200000 reads so far
2011-05-20 15:35:30,399 - INFO - Processed 123300000 reads so far
2011-05-20 15:35:37,956 - INFO - Processed 123400000 reads so far
2011-05-20 15:35:45,931 - INFO - Processed 123500000 reads so far
2011-05-20 15:35:53,435 - INFO - Processed 123600000 reads so far
2011-05-20 15:36:00,835 - INFO - Processed 123700000 reads so far
2011-05-20 15:36:09,049 - INFO - Processed 123800000 reads so far
2011-05-20 15:36:17,451 - INFO - Processed 123900000 reads so far
2011-05-20 15:36:23,623 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:42990059-63010059
2011-05-20 15:36:24,874 - INFO - Processed 124000000 reads so far
2011-05-20 15:36:33,023 - INFO - Processed 124100000 reads so far
2011-05-20 15:36:40,382 - INFO - Processed 124200000 reads so far
2011-05-20 15:36:48,201 - INFO - Processed 124300000 reads so far
2011-05-20 15:36:56,583 - INFO - Processed 124400000 reads so far
2011-05-20 15:37:05,547 - INFO - Processed 124500000 reads so far
2011-05-20 15:37:14,690 - INFO - Processed 124600000 reads so far
2011-05-20 15:37:23,977 - INFO - Processed 124700000 reads so far
2011-05-20 15:37:32,624 - INFO - Processed 124800000 reads so far
2011-05-20 15:37:38,945 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:62990087-83010087
2011-05-20 15:37:40,652 - INFO - Processed 124900000 reads so far
2011-05-20 15:37:48,663 - INFO - Processed 125000000 reads so far
2011-05-20 15:37:57,175 - INFO - Processed 125100000 reads so far
2011-05-20 15:38:05,227 - INFO - Processed 125200000 reads so far
2011-05-20 15:38:12,724 - INFO - Processed 125300000 reads so far
2011-05-20 15:38:21,316 - INFO - Processed 125400000 reads so far
2011-05-20 15:38:31,034 - INFO - Processed 125500000 reads so far
2011-05-20 15:38:39,403 - INFO - Processed 125600000 reads so far
2011-05-20 15:38:50,377 - INFO - Processed 125700000 reads so far
2011-05-20 15:39:00,559 - INFO - Processed 125800000 reads so far
2011-05-20 15:39:10,616 - INFO - Processed 125900000 reads so far
2011-05-20 15:39:11,239 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:82990089-103010089
2011-05-20 15:39:19,799 - INFO - Processed 126000000 reads so far
2011-05-20 15:39:28,811 - INFO - Processed 126100000 reads so far
2011-05-20 15:39:38,445 - INFO - Processed 126200000 reads so far
2011-05-20 15:39:46,321 - INFO - Processed 126300000 reads so far
2011-05-20 15:39:55,508 - INFO - Processed 126400000 reads so far
2011-05-20 15:40:04,479 - INFO - Processed 126500000 reads so far
2011-05-20 15:40:12,800 - INFO - Processed 126600000 reads so far
2011-05-20 15:40:23,635 - INFO - Processed 126700000 reads so far
2011-05-20 15:40:33,728 - INFO - Processed 126800000 reads so far
2011-05-20 15:40:44,524 - INFO - Processed 126900000 reads so far
2011-05-20 15:40:49,094 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:102990127-123010127
2011-05-20 15:40:55,610 - INFO - Processed 127000000 reads so far
2011-05-20 15:41:06,597 - INFO - Processed 127100000 reads so far
2011-05-20 15:41:16,652 - INFO - Processed 127200000 reads so far
2011-05-20 15:41:26,459 - INFO - Processed 127300000 reads so far
2011-05-20 15:41:36,082 - INFO - Processed 127400000 reads so far
2011-05-20 15:41:45,289 - INFO - Processed 127500000 reads so far
2011-05-20 15:41:55,919 - INFO - Processed 127600000 reads so far
2011-05-20 15:42:04,892 - INFO - Processed 127700000 reads so far
2011-05-20 15:42:13,539 - INFO - Processed 127800000 reads so far
2011-05-20 15:42:22,719 - INFO - Processed 127900000 reads so far
2011-05-20 15:42:30,297 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:122990178-143010178
2011-05-20 15:42:31,466 - INFO - Processed 128000000 reads so far
2011-05-20 15:42:41,062 - INFO - Processed 128100000 reads so far
2011-05-20 15:42:50,097 - INFO - Processed 128200000 reads so far
2011-05-20 15:42:59,295 - INFO - Processed 128300000 reads so far
2011-05-20 15:43:07,425 - INFO - Processed 128400000 reads so far
2011-05-20 15:43:14,519 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8_random:0-20010002
2011-05-20 15:43:16,665 - INFO - Processed 128500000 reads so far
2011-05-20 15:43:23,917 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:2989986-23009986
2011-05-20 15:43:24,567 - INFO - Processed 128600000 reads so far
2011-05-20 15:43:32,373 - INFO - Processed 128700000 reads so far
2011-05-20 15:43:40,601 - INFO - Processed 128800000 reads so far
2011-05-20 15:43:50,330 - INFO - Processed 128900000 reads so far
2011-05-20 15:43:59,495 - INFO - Processed 129000000 reads so far
2011-05-20 15:44:08,545 - INFO - Processed 129100000 reads so far
2011-05-20 15:44:18,000 - INFO - Processed 129200000 reads so far
2011-05-20 15:44:28,201 - INFO - Processed 129300000 reads so far
2011-05-20 15:44:37,291 - INFO - Processed 129400000 reads so far
2011-05-20 15:44:46,843 - INFO - Processed 129500000 reads so far
2011-05-20 15:44:56,710 - INFO - Processed 129600000 reads so far
2011-05-20 15:45:05,991 - INFO - Processed 129700000 reads so far
2011-05-20 15:45:16,383 - INFO - Processed 129800000 reads so far
2011-05-20 15:45:25,791 - INFO - Processed 129900000 reads so far
2011-05-20 15:45:33,745 - INFO - Processed 130000000 reads so far
2011-05-20 15:45:41,654 - INFO - Processed 130100000 reads so far
2011-05-20 15:45:49,618 - INFO - Processed 130200000 reads so far
2011-05-20 15:45:58,571 - INFO - Processed 130300000 reads so far
2011-05-20 15:46:05,516 - INFO - Processed 130400000 reads so far
2011-05-20 15:46:13,501 - INFO - Processed 130500000 reads so far
2011-05-20 15:46:23,240 - INFO - Processed 130600000 reads so far
2011-05-20 15:46:31,390 - INFO - Processed 130700000 reads so far
2011-05-20 15:46:38,346 - INFO - Processed 130800000 reads so far
2011-05-20 15:46:45,558 - INFO - Processed 130900000 reads so far
2011-05-20 15:46:52,135 - INFO - Processed 131000000 reads so far
2011-05-20 15:46:59,730 - INFO - Processed 131100000 reads so far
2011-05-20 15:47:06,456 - INFO - Processed 131200000 reads so far
2011-05-20 15:47:13,291 - INFO - Processed 131300000 reads so far
2011-05-20 15:47:21,118 - INFO - Processed 131400000 reads so far
2011-05-20 15:47:28,118 - INFO - Processed 131500000 reads so far
2011-05-20 15:47:34,860 - INFO - Processed 131600000 reads so far
2011-05-20 15:47:43,176 - INFO - Processed 131700000 reads so far
2011-05-20 15:47:51,290 - INFO - Processed 131800000 reads so far
2011-05-20 15:47:58,208 - INFO - Processed 131900000 reads so far
2011-05-20 15:48:05,133 - INFO - Processed 132000000 reads so far
2011-05-20 15:48:11,728 - INFO - Processed 132100000 reads so far
2011-05-20 15:48:20,873 - INFO - Processed 132200000 reads so far
2011-05-20 15:48:29,366 - INFO - Processed 132300000 reads so far
2011-05-20 15:48:37,013 - INFO - Processed 132400000 reads so far
2011-05-20 15:48:43,893 - INFO - Processed 132500000 reads so far
2011-05-20 15:48:52,211 - INFO - Processed 132600000 reads so far
2011-05-20 15:49:00,171 - INFO - Processed 132700000 reads so far
2011-05-20 15:49:08,289 - INFO - Processed 132800000 reads so far
2011-05-20 15:49:14,837 - INFO - Processed 132900000 reads so far
2011-05-20 15:49:21,045 - INFO - Processed 133000000 reads so far
2011-05-20 15:49:27,172 - INFO - Processed 133100000 reads so far
2011-05-20 15:49:33,751 - INFO - Processed 133200000 reads so far
2011-05-20 15:49:40,922 - INFO - Processed 133300000 reads so far
2011-05-20 15:49:49,165 - INFO - Processed 133400000 reads so far
2011-05-20 15:49:56,962 - INFO - Processed 133500000 reads so far
2011-05-20 15:50:03,613 - INFO - Processed 133600000 reads so far
2011-05-20 15:50:09,947 - INFO - Processed 133700000 reads so far
2011-05-20 15:50:16,534 - INFO - Processed 133800000 reads so far
2011-05-20 15:50:23,622 - INFO - Processed 133900000 reads so far
2011-05-20 15:50:31,297 - INFO - Processed 134000000 reads so far
2011-05-20 15:50:37,812 - INFO - Processed 134100000 reads so far
2011-05-20 15:50:46,439 - INFO - Processed 134200000 reads so far
2011-05-20 15:50:55,342 - INFO - Processed 134300000 reads so far
2011-05-20 15:51:02,895 - INFO - Processed 134400000 reads so far
2011-05-20 15:51:09,836 - INFO - Processed 134500000 reads so far
2011-05-20 15:51:18,617 - INFO - Processed 134600000 reads so far
2011-05-20 15:51:26,778 - INFO - Processed 134700000 reads so far
2011-05-20 15:51:34,921 - INFO - Processed 134800000 reads so far
2011-05-20 15:51:44,153 - INFO - Processed 134900000 reads so far
2011-05-20 15:51:51,584 - INFO - Processed 135000000 reads so far
2011-05-20 15:51:59,892 - INFO - Processed 135100000 reads so far
2011-05-20 15:52:07,443 - INFO - Processed 135200000 reads so far
2011-05-20 15:52:14,939 - INFO - Processed 135300000 reads so far
2011-05-20 15:52:22,194 - INFO - Processed 135400000 reads so far
2011-05-20 15:52:30,112 - INFO - Processed 135500000 reads so far
2011-05-20 15:52:38,313 - INFO - Processed 135600000 reads so far
2011-05-20 15:52:46,845 - INFO - Processed 135700000 reads so far
2011-05-20 15:52:56,403 - INFO - Processed 135800000 reads so far
2011-05-20 15:53:05,449 - INFO - Processed 135900000 reads so far
2011-05-20 15:53:13,206 - INFO - Processed 136000000 reads so far
2011-05-20 15:53:22,224 - INFO - Processed 136100000 reads so far
2011-05-20 15:53:30,456 - INFO - Processed 136200000 reads so far
2011-05-20 15:53:39,496 - INFO - Processed 136300000 reads so far
2011-05-20 15:53:47,989 - INFO - Processed 136400000 reads so far
2011-05-20 15:53:54,461 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:22989998-43009998
2011-05-20 15:53:57,780 - INFO - Processed 136500000 reads so far
2011-05-20 15:54:06,019 - INFO - Processed 136600000 reads so far
2011-05-20 15:54:14,366 - INFO - Processed 136700000 reads so far
2011-05-20 15:54:23,248 - INFO - Processed 136800000 reads so far
2011-05-20 15:54:32,108 - INFO - Processed 136900000 reads so far
2011-05-20 15:54:39,678 - INFO - Processed 137000000 reads so far
2011-05-20 15:54:48,650 - INFO - Processed 137100000 reads so far
2011-05-20 15:54:56,006 - INFO - Processed 137200000 reads so far
2011-05-20 15:55:03,688 - INFO - Processed 137300000 reads so far
2011-05-20 15:55:11,164 - INFO - Processed 137400000 reads so far
2011-05-20 15:55:20,090 - INFO - Processed 137500000 reads so far
2011-05-20 15:55:28,494 - INFO - Processed 137600000 reads so far
2011-05-20 15:55:31,565 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:42990031-63010031
2011-05-20 15:55:36,221 - INFO - Processed 137700000 reads so far
2011-05-20 15:55:44,590 - INFO - Processed 137800000 reads so far
2011-05-20 15:55:54,053 - INFO - Processed 137900000 reads so far
2011-05-20 15:56:02,487 - INFO - Processed 138000000 reads so far
2011-05-20 15:56:09,807 - INFO - Processed 138100000 reads so far
2011-05-20 15:56:18,592 - INFO - Processed 138200000 reads so far
2011-05-20 15:56:26,707 - INFO - Processed 138300000 reads so far
2011-05-20 15:56:34,750 - INFO - Processed 138400000 reads so far
2011-05-20 15:56:42,247 - INFO - Processed 138500000 reads so far
2011-05-20 15:56:52,060 - INFO - Processed 138600000 reads so far
2011-05-20 15:56:59,849 - INFO - Processed 138700000 reads so far
2011-05-20 15:57:00,451 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:62990043-83010043
2011-05-20 15:57:07,461 - INFO - Processed 138800000 reads so far
2011-05-20 15:57:15,985 - INFO - Processed 138900000 reads so far
2011-05-20 15:57:23,836 - INFO - Processed 139000000 reads so far
2011-05-20 15:57:33,100 - INFO - Processed 139100000 reads so far
2011-05-20 15:57:40,973 - INFO - Processed 139200000 reads so far
2011-05-20 15:57:48,750 - INFO - Processed 139300000 reads so far
2011-05-20 15:57:56,724 - INFO - Processed 139400000 reads so far
2011-05-20 15:58:04,945 - INFO - Processed 139500000 reads so far
2011-05-20 15:58:12,280 - INFO - Processed 139600000 reads so far
2011-05-20 15:58:20,573 - INFO - Processed 139700000 reads so far
2011-05-20 15:58:22,109 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:82990045-103010045
2011-05-20 15:58:27,845 - INFO - Processed 139800000 reads so far
2011-05-20 15:58:36,056 - INFO - Processed 139900000 reads so far
2011-05-20 15:58:43,291 - INFO - Processed 140000000 reads so far
2011-05-20 15:58:51,612 - INFO - Processed 140100000 reads so far
2011-05-20 15:58:59,829 - INFO - Processed 140200000 reads so far
2011-05-20 15:59:07,716 - INFO - Processed 140300000 reads so far
2011-05-20 15:59:15,277 - INFO - Processed 140400000 reads so far
2011-05-20 15:59:22,384 - INFO - Processed 140500000 reads so far
2011-05-20 15:59:31,341 - INFO - Processed 140600000 reads so far
2011-05-20 15:59:39,043 - INFO - Processed 140700000 reads so far
2011-05-20 15:59:41,681 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:102990046-123010046
2011-05-20 15:59:46,609 - INFO - Processed 140800000 reads so far
2011-05-20 15:59:54,218 - INFO - Processed 140900000 reads so far
2011-05-20 16:00:02,696 - INFO - Processed 141000000 reads so far
2011-05-20 16:00:10,095 - INFO - Processed 141100000 reads so far
2011-05-20 16:00:18,101 - INFO - Processed 141200000 reads so far
2011-05-20 16:00:25,550 - INFO - Processed 141300000 reads so far
2011-05-20 16:00:35,049 - INFO - Processed 141400000 reads so far
2011-05-20 16:00:42,878 - INFO - Processed 141500000 reads so far
2011-05-20 16:00:51,239 - INFO - Processed 141600000 reads so far
2011-05-20 16:00:59,983 - INFO - Processed 141700000 reads so far
2011-05-20 16:01:09,155 - INFO - Processed 141800000 reads so far
2011-05-20 16:01:09,831 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:122990061-143010061
2011-05-20 16:01:14,552 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9_random:0-20010006
2011-05-20 16:01:17,317 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrM:0-20010000
2011-05-20 16:01:17,647 - INFO - Processed 141900000 reads so far
2011-05-20 16:01:22,120 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrUn_random:0-20010000
2011-05-20 16:01:23,621 - INFO - Processed 142000000 reads so far
2011-05-20 16:01:31,501 - INFO - Processed 142100000 reads so far
2011-05-20 16:01:39,367 - INFO - Processed 142200000 reads so far
2011-05-20 16:01:46,040 - INFO - Processed 142300000 reads so far
2011-05-20 16:01:52,644 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:2990001-23010001
2011-05-20 16:01:54,262 - INFO - Processed 142400000 reads so far
2011-05-20 16:02:01,523 - INFO - Processed 142500000 reads so far
2011-05-20 16:02:08,405 - INFO - Processed 142600000 reads so far
2011-05-20 16:02:16,264 - INFO - Processed 142700000 reads so far
2011-05-20 16:02:23,720 - INFO - Processed 142800000 reads so far
2011-05-20 16:02:31,213 - INFO - Processed 142900000 reads so far
2011-05-20 16:02:39,422 - INFO - Processed 143000000 reads so far
2011-05-20 16:02:47,192 - INFO - Processed 143100000 reads so far
2011-05-20 16:02:54,914 - INFO - Processed 143200000 reads so far
2011-05-20 16:03:03,459 - INFO - Processed 143300000 reads so far
2011-05-20 16:03:10,965 - INFO - Processed 143400000 reads so far
2011-05-20 16:03:17,986 - INFO - Processed 143500000 reads so far
2011-05-20 16:03:18,959 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:22990004-43010004
2011-05-20 16:03:25,288 - INFO - Processed 143600000 reads so far
2011-05-20 16:03:32,758 - INFO - Processed 143700000 reads so far
2011-05-20 16:03:41,075 - INFO - Processed 143800000 reads so far
2011-05-20 16:03:47,662 - INFO - Processed 143900000 reads so far
2011-05-20 16:03:55,114 - INFO - Processed 144000000 reads so far
2011-05-20 16:04:02,562 - INFO - Processed 144100000 reads so far
2011-05-20 16:04:10,873 - INFO - Processed 144200000 reads so far
2011-05-20 16:04:19,258 - INFO - Processed 144300000 reads so far
2011-05-20 16:04:26,759 - INFO - Processed 144400000 reads so far
2011-05-20 16:04:34,086 - INFO - Processed 144500000 reads so far
2011-05-20 16:04:41,493 - INFO - Processed 144600000 reads so far
2011-05-20 16:04:46,418 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:42990008-63010008
2011-05-20 16:04:49,507 - INFO - Processed 144700000 reads so far
2011-05-20 16:04:57,071 - INFO - Processed 144800000 reads so far
2011-05-20 16:05:05,755 - INFO - Processed 144900000 reads so far
2011-05-20 16:05:14,487 - INFO - Processed 145000000 reads so far
2011-05-20 16:05:21,283 - INFO - Processed 145100000 reads so far
2011-05-20 16:05:28,550 - INFO - Processed 145200000 reads so far
2011-05-20 16:05:36,288 - INFO - Processed 145300000 reads so far
2011-05-20 16:05:44,182 - INFO - Processed 145400000 reads so far
2011-05-20 16:05:52,009 - INFO - Processed 145500000 reads so far
2011-05-20 16:05:59,813 - INFO - Processed 145600000 reads so far
2011-05-20 16:06:06,548 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:62990045-83010045
2011-05-20 16:06:07,813 - INFO - Processed 145700000 reads so far
2011-05-20 16:06:16,446 - INFO - Processed 145800000 reads so far
2011-05-20 16:06:24,183 - INFO - Processed 145900000 reads so far
2011-05-20 16:06:31,791 - INFO - Processed 146000000 reads so far
2011-05-20 16:06:39,727 - INFO - Processed 146100000 reads so far
2011-05-20 16:06:47,609 - INFO - Processed 146200000 reads so far
2011-05-20 16:06:54,753 - INFO - Processed 146300000 reads so far
2011-05-20 16:07:02,918 - INFO - Processed 146400000 reads so far
2011-05-20 16:07:10,617 - INFO - Processed 146500000 reads so far
2011-05-20 16:07:17,981 - INFO - Processed 146600000 reads so far
2011-05-20 16:07:24,896 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:82990067-103010067
2011-05-20 16:07:25,575 - INFO - Processed 146700000 reads so far
2011-05-20 16:07:33,921 - INFO - Processed 146800000 reads so far
2011-05-20 16:07:43,424 - INFO - Processed 146900000 reads so far
2011-05-20 16:07:50,852 - INFO - Processed 147000000 reads so far
2011-05-20 16:07:58,813 - INFO - Processed 147100000 reads so far
2011-05-20 16:08:05,966 - INFO - Processed 147200000 reads so far
2011-05-20 16:08:13,313 - INFO - Processed 147300000 reads so far
2011-05-20 16:08:20,539 - INFO - Processed 147400000 reads so far
2011-05-20 16:08:28,189 - INFO - Processed 147500000 reads so far
2011-05-20 16:08:35,946 - INFO - Processed 147600000 reads so far
2011-05-20 16:08:42,445 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:102990105-123010105
2011-05-20 16:08:43,750 - INFO - Processed 147700000 reads so far
2011-05-20 16:08:51,255 - INFO - Processed 147800000 reads so far
2011-05-20 16:08:59,239 - INFO - Processed 147900000 reads so far
2011-05-20 16:09:06,787 - INFO - Processed 148000000 reads so far
2011-05-20 16:09:14,105 - INFO - Processed 148100000 reads so far
2011-05-20 16:09:22,826 - INFO - Processed 148200000 reads so far
2011-05-20 16:09:32,257 - INFO - Processed 148300000 reads so far
2011-05-20 16:09:40,645 - INFO - Processed 148400000 reads so far
2011-05-20 16:09:48,394 - INFO - Processed 148500000 reads so far
2011-05-20 16:09:55,603 - INFO - Processed 148600000 reads so far
2011-05-20 16:09:57,448 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:122990137-143010137
2011-05-20 16:10:03,348 - INFO - Processed 148700000 reads so far
2011-05-20 16:10:10,649 - INFO - Processed 148800000 reads so far
2011-05-20 16:10:18,188 - INFO - Processed 148900000 reads so far
2011-05-20 16:10:25,182 - INFO - Processed 149000000 reads so far
2011-05-20 16:10:33,407 - INFO - Processed 149100000 reads so far
2011-05-20 16:10:41,051 - INFO - Processed 149200000 reads so far
2011-05-20 16:10:48,382 - INFO - Processed 149300000 reads so far
2011-05-20 16:10:56,212 - INFO - Processed 149400000 reads so far
2011-05-20 16:11:04,162 - INFO - Processed 149500000 reads so far
2011-05-20 16:11:12,262 - INFO - Processed 149600000 reads so far
2011-05-20 16:11:17,757 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:142990173-163010173
2011-05-20 16:11:19,663 - INFO - Processed 149700000 reads so far
2011-05-20 16:11:27,501 - INFO - Processed 149800000 reads so far
2011-05-20 16:11:35,431 - INFO - Processed 149900000 reads so far
2011-05-20 16:11:44,137 - INFO - Processed 150000000 reads so far
2011-05-20 16:11:52,278 - INFO - Processed 150100000 reads so far
2011-05-20 16:12:00,043 - INFO - Processed 150200000 reads so far
2011-05-20 16:12:07,943 - INFO - Processed 150300000 reads so far
2011-05-20 16:12:16,577 - INFO - Processed 150400000 reads so far
2011-05-20 16:12:24,422 - INFO - Processed 150500000 reads so far
2011-05-20 16:12:32,170 - INFO - Processed 150600000 reads so far
2011-05-20 16:12:35,375 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:162990177-183010177
2011-05-20 16:12:40,520 - INFO - Processed 150700000 reads so far
2011-05-20 16:12:48,588 - INFO - Processed 150800000 reads so far
2011-05-20 16:12:56,379 - INFO - Processed 150900000 reads so far
2011-05-20 16:12:57,642 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX_random:0-20010000
2011-05-20 16:13:01,668 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrY:0-20010747
2011-05-20 16:13:02,612 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrY_random:50629-20070629
2011-05-20 16:13:03,667 - INFO - Processed 151000000 reads so far
2011-05-20 16:13:04,085 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrY_random:20178127-40198127
2011-05-20 16:13:05,361 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrY_random:40189559-60209559
2011-05-20 16:13:09,844 - INFO - Processed 151100000 reads so far
2011-05-20 16:13:13,043 - INFO - Processed 151200000 reads so far
2011-05-20 16:13:16,892 - INFO - Processed 151300000 reads so far
2011-05-20 16:13:19,814 - INFO - Processed 151400000 reads so far
2011-05-20 16:13:23,520 - INFO - Processed 151500000 reads so far
2011-05-20 16:13:26,684 - INFO - Processed 151600000 reads so far
2011-05-20 16:13:30,472 - INFO - Processed 151700000 reads so far
2011-05-20 16:13:34,617 - INFO - Processed 151800000 reads so far
2011-05-20 16:13:37,542 - INFO - Processed 151900000 reads so far
2011-05-20 16:13:41,236 - INFO - Processed 152000000 reads so far
2011-05-20 16:13:44,344 - INFO - Processed 152100000 reads so far
2011-05-20 16:13:47,722 - INFO - Processed 152200000 reads so far
2011-05-20 16:13:50,949 - INFO - Processed 152300000 reads so far
2011-05-20 16:13:54,049 - INFO - Processed 152400000 reads so far
2011-05-20 16:13:56,787 - INFO - Processed 152500000 reads so far
2011-05-20 16:14:00,545 - INFO - Processed 152600000 reads so far
2011-05-20 16:14:04,387 - INFO - Processed 152700000 reads so far
2011-05-20 16:14:09,271 - INFO - Processed 152800000 reads so far
2011-05-20 16:14:13,805 - INFO - Processed 152900000 reads so far
2011-05-20 16:14:18,018 - INFO - Processed 153000000 reads so far
2011-05-20 16:14:21,455 - INFO - Processed 153100000 reads so far
2011-05-20 16:14:25,615 - INFO - Processed 153200000 reads so far
2011-05-20 16:14:26,048 - INFO - Finished loading data. Outputting QC metrics
2011-05-20 16:14:41,682 - INFO - Finished outputting QC metrics
2011-05-20 16:14:41,778 - INFO - Finished generating QC metrics