2011-05-20 05:34:31,142 - INFO - Generating QC metrics for BAM File ['WTCHG_11731.bam']
2011-05-20 05:34:31,142 - INFO - Output will go to WTCHG_11731.qc.txt.tmp
2011-05-20 05:34:31,142 - INFO - Reading GC Map from file /data/Genomes/gcMap/Mouse37.gcMap.gz
2011-05-20 05:37:22,082 - INFO - Finished reading GC Map
2011-05-20 05:37:22,082 - INFO - Reading CDS from exon definition file /data/Genomes/annotation/Mouse37.refGene.txt.gz
2011-05-20 05:37:25,013 - INFO - Read 382138 exons (33804740 nucleotides) for 32 chromosomes
2011-05-20 05:37:25,014 - INFO - Computing coverage cut-off
2011-05-20 05:37:25,014 - INFO - Retrieving BAM file coverage info from samtools pileup
2011-05-20 05:37:28,732 - INFO - Processed 1000000 pile-up sites
2011-05-20 05:37:31,284 - INFO - Processed 2000000 pile-up sites
2011-05-20 05:37:33,574 - INFO - Processed 3000000 pile-up sites
2011-05-20 05:37:36,135 - INFO - Processed 4000000 pile-up sites
2011-05-20 05:37:39,614 - INFO - Processed 5000000 pile-up sites
2011-05-20 05:37:43,472 - INFO - Processed 6000000 pile-up sites
2011-05-20 05:37:47,164 - INFO - Processed 7000000 pile-up sites
2011-05-20 05:37:51,427 - INFO - Processed 8000000 pile-up sites
2011-05-20 05:37:55,356 - INFO - Processed 9000000 pile-up sites
2011-05-20 05:37:59,592 - INFO - Processed 10000000 pile-up sites
2011-05-20 05:38:03,704 - INFO - Processed 11000000 pile-up sites
2011-05-20 05:38:07,188 - INFO - Processed 12000000 pile-up sites
2011-05-20 05:38:11,246 - INFO - Processed 13000000 pile-up sites
2011-05-20 05:38:15,312 - INFO - Processed 14000000 pile-up sites
2011-05-20 05:38:18,942 - INFO - Processed 15000000 pile-up sites
2011-05-20 05:38:21,665 - INFO - Processed 16000000 pile-up sites
2011-05-20 05:38:24,113 - INFO - Processed 17000000 pile-up sites
2011-05-20 05:38:28,160 - INFO - Processed 18000000 pile-up sites
2011-05-20 05:38:32,512 - INFO - Processed 19000000 pile-up sites
2011-05-20 05:38:37,446 - INFO - Processed 20000000 pile-up sites
2011-05-20 05:38:41,502 - INFO - Processed 21000000 pile-up sites
2011-05-20 05:38:45,571 - INFO - Processed 22000000 pile-up sites
2011-05-20 05:38:49,139 - INFO - Processed 23000000 pile-up sites
2011-05-20 05:38:51,505 - INFO - Processed 24000000 pile-up sites
2011-05-20 05:38:56,525 - INFO - Processed 25000000 pile-up sites
2011-05-20 05:39:00,837 - INFO - Processed 26000000 pile-up sites
2011-05-20 05:39:04,099 - INFO - Processed 27000000 pile-up sites
2011-05-20 05:39:07,594 - INFO - Processed 28000000 pile-up sites
2011-05-20 05:39:11,083 - INFO - Processed 29000000 pile-up sites
2011-05-20 05:39:14,383 - INFO - Processed 30000000 pile-up sites
2011-05-20 05:39:16,744 - INFO - Processed 31000000 pile-up sites
2011-05-20 05:39:19,415 - INFO - Processed 32000000 pile-up sites
2011-05-20 05:39:23,366 - INFO - Processed 33000000 pile-up sites
2011-05-20 05:39:27,095 - INFO - Processed 34000000 pile-up sites
2011-05-20 05:39:31,425 - INFO - Processed 35000000 pile-up sites
2011-05-20 05:39:35,220 - INFO - Processed 36000000 pile-up sites
2011-05-20 05:39:36,847 - INFO - Finished processing pile-up on 36464584 sites (200000006 nucleotides)
2011-05-20 05:39:36,847 - INFO - Coverage cut-off value is 20
2011-05-20 05:39:36,847 - INFO - Loading data into QC data manager
2011-05-20 05:39:37,021 - WARNING - Found RG tag 'SM' (value: 34) duplicated in CO field (value: 4617/10) -- ignoring CO value
2011-05-20 05:39:37,021 - WARNING - Found RG tag 'ID' (value: WTCHG_11731) duplicated in CO field (value: 4617/10) -- ignoring CO value
2011-05-20 05:39:37,022 - WARNING - Found RG tag 'SM' (value: 34) duplicated in CO field (value: 4617/10) -- ignoring CO value
2011-05-20 05:39:37,022 - WARNING - Found RG tag 'ID' (value: WTCHG_11731) duplicated in CO field (value: 4617/10) -- ignoring CO value
2011-05-20 05:39:37,022 - WARNING - Found RG tag 'SM' (value: 34) duplicated in CO field (value: 4617/10) -- ignoring CO value
2011-05-20 05:39:37,022 - WARNING - Found RG tag 'ID' (value: WTCHG_11731) duplicated in CO field (value: 4617/10) -- ignoring CO value
2011-05-20 05:39:37,022 - WARNING - Found RG tag 'SM' (value: 34) duplicated in CO field (value: 4617/10) -- ignoring CO value
2011-05-20 05:39:37,022 - WARNING - Found RG tag 'ID' (value: WTCHG_11731) duplicated in CO field (value: 4617/10) -- ignoring CO value
2011-05-20 05:39:37,075 - WARNING - Found RG tag 'SM' (value: 34) duplicated in CO field (value: 4617/10) -- ignoring CO value
2011-05-20 05:39:37,075 - WARNING - Found RG tag 'ID' (value: WTCHG_11731) duplicated in CO field (value: 4617/10) -- ignoring CO value
2011-05-20 05:39:37,075 - WARNING - Found RG tag 'SM' (value: 34) duplicated in CO field (value: 4617/10) -- ignoring CO value
2011-05-20 05:39:37,075 - WARNING - Found RG tag 'ID' (value: WTCHG_11731) duplicated in CO field (value: 4617/10) -- ignoring CO value
2011-05-20 05:39:37,075 - WARNING - Found RG tag 'SM' (value: 34) duplicated in CO field (value: 4617/10) -- ignoring CO value
2011-05-20 05:39:37,075 - WARNING - Found RG tag 'ID' (value: WTCHG_11731) duplicated in CO field (value: 4617/10) -- ignoring CO value
2011-05-20 05:39:37,075 - WARNING - Found RG tag 'SM' (value: 34) duplicated in CO field (value: 4617/10) -- ignoring CO value
2011-05-20 05:39:37,076 - WARNING - Found RG tag 'ID' (value: WTCHG_11731) duplicated in CO field (value: 4617/10) -- ignoring CO value
2011-05-20 05:39:37,084 - INFO - Reading data from BAM file WTCHG_11731.bam. All reads in file will be read
2011-05-20 05:39:37,126 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:2990010-23010010
2011-05-20 05:39:47,988 - INFO - Processed 100000 reads so far
2011-05-20 05:39:58,300 - INFO - Processed 200000 reads so far
2011-05-20 05:40:06,108 - INFO - Processed 300000 reads so far
2011-05-20 05:40:16,687 - INFO - Processed 400000 reads so far
2011-05-20 05:40:26,991 - INFO - Processed 500000 reads so far
2011-05-20 05:40:33,758 - INFO - Processed 600000 reads so far
2011-05-20 05:40:40,912 - INFO - Processed 700000 reads so far
2011-05-20 05:40:47,640 - INFO - Processed 800000 reads so far
2011-05-20 05:40:54,420 - INFO - Processed 900000 reads so far
2011-05-20 05:41:01,229 - INFO - Processed 1000000 reads so far
2011-05-20 05:41:06,816 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:22990026-43010026
2011-05-20 05:41:09,976 - INFO - Processed 1100000 reads so far
2011-05-20 05:41:20,908 - INFO - Processed 1200000 reads so far
2011-05-20 05:41:32,012 - INFO - Processed 1300000 reads so far
2011-05-20 05:41:42,149 - INFO - Processed 1400000 reads so far
2011-05-20 05:41:52,333 - INFO - Processed 1500000 reads so far
2011-05-20 05:42:02,847 - INFO - Processed 1600000 reads so far
2011-05-20 05:42:13,190 - INFO - Processed 1700000 reads so far
2011-05-20 05:42:22,572 - INFO - Processed 1800000 reads so far
2011-05-20 05:42:31,310 - INFO - Processed 1900000 reads so far
2011-05-20 05:42:42,571 - INFO - Processed 2000000 reads so far
2011-05-20 05:42:53,991 - INFO - Processed 2100000 reads so far
2011-05-20 05:42:56,559 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:42990059-63010059
2011-05-20 05:43:05,423 - INFO - Processed 2200000 reads so far
2011-05-20 05:43:16,712 - INFO - Processed 2300000 reads so far
2011-05-20 05:43:27,936 - INFO - Processed 2400000 reads so far
2011-05-20 05:43:38,007 - INFO - Processed 2500000 reads so far
2011-05-20 05:43:48,715 - INFO - Processed 2600000 reads so far
2011-05-20 05:43:59,163 - INFO - Processed 2700000 reads so far
2011-05-20 05:44:09,931 - INFO - Processed 2800000 reads so far
2011-05-20 05:44:20,819 - INFO - Processed 2900000 reads so far
2011-05-20 05:44:31,512 - INFO - Processed 3000000 reads so far
2011-05-20 05:44:42,708 - INFO - Processed 3100000 reads so far
2011-05-20 05:44:49,717 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:62990081-83010081
2011-05-20 05:44:54,304 - INFO - Processed 3200000 reads so far
2011-05-20 05:45:05,598 - INFO - Processed 3300000 reads so far
2011-05-20 05:45:16,851 - INFO - Processed 3400000 reads so far
2011-05-20 05:45:28,134 - INFO - Processed 3500000 reads so far
2011-05-20 05:45:40,412 - INFO - Processed 3600000 reads so far
2011-05-20 05:45:50,308 - INFO - Processed 3700000 reads so far
2011-05-20 05:45:59,673 - INFO - Processed 3800000 reads so far
2011-05-20 05:46:11,685 - INFO - Processed 3900000 reads so far
2011-05-20 05:46:22,273 - INFO - Processed 4000000 reads so far
2011-05-20 05:46:35,121 - INFO - Processed 4100000 reads so far
2011-05-20 05:46:42,999 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:82990176-103010176
2011-05-20 05:46:43,776 - INFO - Processed 4200000 reads so far
2011-05-20 05:46:53,016 - INFO - Processed 4300000 reads so far
2011-05-20 05:47:02,207 - INFO - Processed 4400000 reads so far
2011-05-20 05:47:10,729 - INFO - Processed 4500000 reads so far
2011-05-20 05:47:19,311 - INFO - Processed 4600000 reads so far
2011-05-20 05:47:27,126 - INFO - Processed 4700000 reads so far
2011-05-20 05:47:36,141 - INFO - Processed 4800000 reads so far
2011-05-20 05:47:45,047 - INFO - Processed 4900000 reads so far
2011-05-20 05:47:56,668 - INFO - Processed 5000000 reads so far
2011-05-20 05:48:08,472 - INFO - Processed 5100000 reads so far
2011-05-20 05:48:19,884 - INFO - Processed 5200000 reads so far
2011-05-20 05:48:24,553 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:102990181-123010181
2011-05-20 05:48:29,809 - INFO - Processed 5300000 reads so far
2011-05-20 05:48:38,518 - INFO - Processed 5400000 reads so far
2011-05-20 05:48:47,715 - INFO - Processed 5500000 reads so far
2011-05-20 05:48:56,822 - INFO - Processed 5600000 reads so far
2011-05-20 05:49:07,434 - INFO - Processed 5700000 reads so far
2011-05-20 05:49:15,451 - INFO - Processed 5800000 reads so far
2011-05-20 05:49:23,064 - INFO - Processed 5900000 reads so far
2011-05-20 05:49:32,341 - INFO - Processed 6000000 reads so far
2011-05-20 05:49:42,637 - INFO - Processed 6100000 reads so far
2011-05-20 05:49:51,708 - INFO - Processed 6200000 reads so far
2011-05-20 05:49:59,455 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:122990198-143010198
2011-05-20 05:50:00,423 - INFO - Processed 6300000 reads so far
2011-05-20 05:50:09,929 - INFO - Processed 6400000 reads so far
2011-05-20 05:50:20,917 - INFO - Processed 6500000 reads so far
2011-05-20 05:50:30,161 - INFO - Processed 6600000 reads so far
2011-05-20 05:50:35,309 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:2990003-23010003
2011-05-20 05:50:39,214 - INFO - Processed 6700000 reads so far
2011-05-20 05:50:46,536 - INFO - Processed 6800000 reads so far
2011-05-20 05:50:55,041 - INFO - Processed 6900000 reads so far
2011-05-20 05:51:04,667 - INFO - Processed 7000000 reads so far
2011-05-20 05:51:13,800 - INFO - Processed 7100000 reads so far
2011-05-20 05:51:23,118 - INFO - Processed 7200000 reads so far
2011-05-20 05:51:36,032 - INFO - Processed 7300000 reads so far
2011-05-20 05:51:44,157 - INFO - Processed 7400000 reads so far
2011-05-20 05:51:54,115 - INFO - Processed 7500000 reads so far
2011-05-20 05:52:04,890 - INFO - Processed 7600000 reads so far
2011-05-20 05:52:15,961 - INFO - Processed 7700000 reads so far
2011-05-20 05:52:27,107 - INFO - Processed 7800000 reads so far
2011-05-20 05:52:31,643 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:22990037-43010037
2011-05-20 05:52:38,897 - INFO - Processed 7900000 reads so far
2011-05-20 05:52:47,485 - INFO - Processed 8000000 reads so far
2011-05-20 05:52:57,906 - INFO - Processed 8100000 reads so far
2011-05-20 05:53:08,286 - INFO - Processed 8200000 reads so far
2011-05-20 05:53:18,580 - INFO - Processed 8300000 reads so far
2011-05-20 05:53:28,269 - INFO - Processed 8400000 reads so far
2011-05-20 05:53:37,184 - INFO - Processed 8500000 reads so far
2011-05-20 05:53:47,626 - INFO - Processed 8600000 reads so far
2011-05-20 05:53:57,138 - INFO - Processed 8700000 reads so far
2011-05-20 05:54:05,514 - INFO - Processed 8800000 reads so far
2011-05-20 05:54:16,101 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:42990051-63010051
2011-05-20 05:54:16,924 - INFO - Processed 8900000 reads so far
2011-05-20 05:54:27,211 - INFO - Processed 9000000 reads so far
2011-05-20 05:54:36,106 - INFO - Processed 9100000 reads so far
2011-05-20 05:54:47,990 - INFO - Processed 9200000 reads so far
2011-05-20 05:54:57,820 - INFO - Processed 9300000 reads so far
2011-05-20 05:55:06,762 - INFO - Processed 9400000 reads so far
2011-05-20 05:55:16,561 - INFO - Processed 9500000 reads so far
2011-05-20 05:55:25,690 - INFO - Processed 9600000 reads so far
2011-05-20 05:55:34,352 - INFO - Processed 9700000 reads so far
2011-05-20 05:55:43,061 - INFO - Processed 9800000 reads so far
2011-05-20 05:55:51,866 - INFO - Processed 9900000 reads so far
2011-05-20 05:55:57,053 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:62990054-83010054
2011-05-20 05:56:00,529 - INFO - Processed 10000000 reads so far
2011-05-20 05:56:09,107 - INFO - Processed 10100000 reads so far
2011-05-20 05:56:17,963 - INFO - Processed 10200000 reads so far
2011-05-20 05:56:26,209 - INFO - Processed 10300000 reads so far
2011-05-20 05:56:35,663 - INFO - Processed 10400000 reads so far
2011-05-20 05:56:46,883 - INFO - Processed 10500000 reads so far
2011-05-20 05:56:55,761 - INFO - Processed 10600000 reads so far
2011-05-20 05:57:05,387 - INFO - Processed 10700000 reads so far
2011-05-20 05:57:14,544 - INFO - Processed 10800000 reads so far
2011-05-20 05:57:24,182 - INFO - Processed 10900000 reads so far
2011-05-20 05:57:33,162 - INFO - Processed 11000000 reads so far
2011-05-20 05:57:33,409 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:82990089-103010089
2011-05-20 05:57:41,191 - INFO - Processed 11100000 reads so far
2011-05-20 05:57:50,658 - INFO - Processed 11200000 reads so far
2011-05-20 05:58:00,202 - INFO - Processed 11300000 reads so far
2011-05-20 05:58:09,713 - INFO - Processed 11400000 reads so far
2011-05-20 05:58:18,296 - INFO - Processed 11500000 reads so far
2011-05-20 05:58:27,916 - INFO - Processed 11600000 reads so far
2011-05-20 05:58:36,192 - INFO - Processed 11700000 reads so far
2011-05-20 05:58:46,631 - INFO - Processed 11800000 reads so far
2011-05-20 05:58:56,420 - INFO - Processed 11900000 reads so far
2011-05-20 05:59:06,192 - INFO - Processed 12000000 reads so far
2011-05-20 05:59:09,572 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:102990173-123010173
2011-05-20 05:59:16,816 - INFO - Processed 12100000 reads so far
2011-05-20 05:59:26,870 - INFO - Processed 12200000 reads so far
2011-05-20 05:59:35,698 - INFO - Processed 12300000 reads so far
2011-05-20 05:59:46,394 - INFO - Processed 12400000 reads so far
2011-05-20 05:59:56,685 - INFO - Processed 12500000 reads so far
2011-05-20 06:00:07,202 - INFO - Processed 12600000 reads so far
2011-05-20 06:00:19,935 - INFO - Processed 12700000 reads so far
2011-05-20 06:00:31,710 - INFO - Processed 12800000 reads so far
2011-05-20 06:00:42,306 - INFO - Processed 12900000 reads so far
2011-05-20 06:00:51,331 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:2990005-23010005
2011-05-20 06:00:52,273 - INFO - Processed 13000000 reads so far
2011-05-20 06:00:59,763 - INFO - Processed 13100000 reads so far
2011-05-20 06:01:10,306 - INFO - Processed 13200000 reads so far
2011-05-20 06:01:22,090 - INFO - Processed 13300000 reads so far
2011-05-20 06:01:38,156 - INFO - Processed 13400000 reads so far
2011-05-20 06:01:46,492 - INFO - Processed 13500000 reads so far
2011-05-20 06:01:54,105 - INFO - Processed 13600000 reads so far
2011-05-20 06:02:05,479 - INFO - Processed 13700000 reads so far
2011-05-20 06:02:14,821 - INFO - Processed 13800000 reads so far
2011-05-20 06:02:24,376 - INFO - Processed 13900000 reads so far
2011-05-20 06:02:33,420 - INFO - Processed 14000000 reads so far
2011-05-20 06:02:42,116 - INFO - Processed 14100000 reads so far
2011-05-20 06:02:49,367 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:22990192-43010192
2011-05-20 06:02:53,242 - INFO - Processed 14200000 reads so far
2011-05-20 06:03:01,399 - INFO - Processed 14300000 reads so far
2011-05-20 06:03:11,900 - INFO - Processed 14400000 reads so far
2011-05-20 06:03:21,571 - INFO - Processed 14500000 reads so far
2011-05-20 06:03:31,196 - INFO - Processed 14600000 reads so far
2011-05-20 06:03:42,464 - INFO - Processed 14700000 reads so far
2011-05-20 06:03:53,554 - INFO - Processed 14800000 reads so far
2011-05-20 06:04:04,576 - INFO - Processed 14900000 reads so far
2011-05-20 06:04:11,994 - INFO - Processed 15000000 reads so far
2011-05-20 06:04:22,047 - INFO - Processed 15100000 reads so far
2011-05-20 06:04:31,903 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:42990200-63010200
2011-05-20 06:04:33,429 - INFO - Processed 15200000 reads so far
2011-05-20 06:04:42,131 - INFO - Processed 15300000 reads so far
2011-05-20 06:04:52,272 - INFO - Processed 15400000 reads so far
2011-05-20 06:04:59,524 - INFO - Processed 15500000 reads so far
2011-05-20 06:05:09,848 - INFO - Processed 15600000 reads so far
2011-05-20 06:05:19,846 - INFO - Processed 15700000 reads so far
2011-05-20 06:05:29,484 - INFO - Processed 15800000 reads so far
2011-05-20 06:05:39,958 - INFO - Processed 15900000 reads so far
2011-05-20 06:05:49,437 - INFO - Processed 16000000 reads so far
2011-05-20 06:06:00,616 - INFO - Processed 16100000 reads so far
2011-05-20 06:06:12,760 - INFO - Processed 16200000 reads so far
2011-05-20 06:06:14,714 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:62990247-83010247
2011-05-20 06:06:21,148 - INFO - Processed 16300000 reads so far
2011-05-20 06:06:29,005 - INFO - Processed 16400000 reads so far
2011-05-20 06:06:37,643 - INFO - Processed 16500000 reads so far
2011-05-20 06:06:49,674 - INFO - Processed 16600000 reads so far
2011-05-20 06:06:58,528 - INFO - Processed 16700000 reads so far
2011-05-20 06:07:06,533 - INFO - Processed 16800000 reads so far
2011-05-20 06:07:17,090 - INFO - Processed 16900000 reads so far
2011-05-20 06:07:27,524 - INFO - Processed 17000000 reads so far
2011-05-20 06:07:36,209 - INFO - Processed 17100000 reads so far
2011-05-20 06:07:46,084 - INFO - Processed 17200000 reads so far
2011-05-20 06:07:52,005 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:82990260-103010260
2011-05-20 06:07:54,326 - INFO - Processed 17300000 reads so far
2011-05-20 06:08:04,070 - INFO - Processed 17400000 reads so far
2011-05-20 06:08:12,291 - INFO - Processed 17500000 reads so far
2011-05-20 06:08:20,398 - INFO - Processed 17600000 reads so far
2011-05-20 06:08:29,874 - INFO - Processed 17700000 reads so far
2011-05-20 06:08:38,723 - INFO - Processed 17800000 reads so far
2011-05-20 06:08:51,434 - INFO - Processed 17900000 reads so far
2011-05-20 06:09:01,018 - INFO - Processed 18000000 reads so far
2011-05-20 06:09:10,236 - INFO - Processed 18100000 reads so far
2011-05-20 06:09:18,335 - INFO - Processed 18200000 reads so far
2011-05-20 06:09:26,958 - INFO - Processed 18300000 reads so far
2011-05-20 06:09:27,334 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:102990269-123010269
2011-05-20 06:09:36,757 - INFO - Processed 18400000 reads so far
2011-05-20 06:09:45,394 - INFO - Processed 18500000 reads so far
2011-05-20 06:09:54,843 - INFO - Processed 18600000 reads so far
2011-05-20 06:10:04,326 - INFO - Processed 18700000 reads so far
2011-05-20 06:10:15,578 - INFO - Processed 18800000 reads so far
2011-05-20 06:10:24,818 - INFO - Processed 18900000 reads so far
2011-05-20 06:10:40,674 - INFO - Processed 19000000 reads so far
2011-05-20 06:10:48,779 - INFO - Processed 19100000 reads so far
2011-05-20 06:11:02,669 - INFO - Processed 19200000 reads so far
2011-05-20 06:11:10,316 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:2990004-23010004
2011-05-20 06:11:12,388 - INFO - Processed 19300000 reads so far
2011-05-20 06:11:23,766 - INFO - Processed 19400000 reads so far
2011-05-20 06:11:35,876 - INFO - Processed 19500000 reads so far
2011-05-20 06:11:45,119 - INFO - Processed 19600000 reads so far
2011-05-20 06:11:56,561 - INFO - Processed 19700000 reads so far
2011-05-20 06:12:07,788 - INFO - Processed 19800000 reads so far
2011-05-20 06:12:16,664 - INFO - Processed 19900000 reads so far
2011-05-20 06:12:33,646 - INFO - Processed 20000000 reads so far
2011-05-20 06:12:41,815 - INFO - Processed 20100000 reads so far
2011-05-20 06:12:55,671 - INFO - Processed 20200000 reads so far
2011-05-20 06:13:04,959 - INFO - Processed 20300000 reads so far
2011-05-20 06:13:07,506 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:22990008-43010008
2011-05-20 06:13:12,248 - INFO - Processed 20400000 reads so far
2011-05-20 06:13:31,961 - INFO - Processed 20500000 reads so far
2011-05-20 06:13:41,760 - INFO - Processed 20600000 reads so far
2011-05-20 06:13:51,926 - INFO - Processed 20700000 reads so far
2011-05-20 06:14:01,765 - INFO - Processed 20800000 reads so far
2011-05-20 06:14:08,890 - INFO - Processed 20900000 reads so far
2011-05-20 06:14:19,599 - INFO - Processed 21000000 reads so far
2011-05-20 06:14:27,578 - INFO - Processed 21100000 reads so far
2011-05-20 06:14:40,705 - INFO - Processed 21200000 reads so far
2011-05-20 06:14:53,065 - INFO - Processed 21300000 reads so far
2011-05-20 06:15:04,206 - INFO - Processed 21400000 reads so far
2011-05-20 06:15:04,657 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:42990017-63010017
2011-05-20 06:15:17,851 - INFO - Processed 21500000 reads so far
2011-05-20 06:15:30,156 - INFO - Processed 21600000 reads so far
2011-05-20 06:15:41,431 - INFO - Processed 21700000 reads so far
2011-05-20 06:15:50,379 - INFO - Processed 21800000 reads so far
2011-05-20 06:16:02,708 - INFO - Processed 21900000 reads so far
2011-05-20 06:16:11,840 - INFO - Processed 22000000 reads so far
2011-05-20 06:16:23,519 - INFO - Processed 22100000 reads so far
2011-05-20 06:16:34,882 - INFO - Processed 22200000 reads so far
2011-05-20 06:16:45,840 - INFO - Processed 22300000 reads so far
2011-05-20 06:16:55,637 - INFO - Processed 22400000 reads so far
2011-05-20 06:17:01,314 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:62990034-83010034
2011-05-20 06:17:04,691 - INFO - Processed 22500000 reads so far
2011-05-20 06:17:12,901 - INFO - Processed 22600000 reads so far
2011-05-20 06:17:22,265 - INFO - Processed 22700000 reads so far
2011-05-20 06:17:34,503 - INFO - Processed 22800000 reads so far
2011-05-20 06:17:46,200 - INFO - Processed 22900000 reads so far
2011-05-20 06:17:55,829 - INFO - Processed 23000000 reads so far
2011-05-20 06:18:07,677 - INFO - Processed 23100000 reads so far
2011-05-20 06:18:16,413 - INFO - Processed 23200000 reads so far
2011-05-20 06:18:27,301 - INFO - Processed 23300000 reads so far
2011-05-20 06:18:35,080 - INFO - Processed 23400000 reads so far
2011-05-20 06:18:43,789 - INFO - Processed 23500000 reads so far
2011-05-20 06:18:46,669 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:82990036-103010036
2011-05-20 06:18:53,523 - INFO - Processed 23600000 reads so far
2011-05-20 06:19:04,888 - INFO - Processed 23700000 reads so far
2011-05-20 06:19:16,334 - INFO - Processed 23800000 reads so far
2011-05-20 06:19:24,936 - INFO - Processed 23900000 reads so far
2011-05-20 06:19:34,656 - INFO - Processed 24000000 reads so far
2011-05-20 06:19:44,188 - INFO - Processed 24100000 reads so far
2011-05-20 06:19:54,875 - INFO - Processed 24200000 reads so far
2011-05-20 06:20:04,835 - INFO - Processed 24300000 reads so far
2011-05-20 06:20:13,668 - INFO - Processed 24400000 reads so far
2011-05-20 06:20:22,169 - INFO - Processed 24500000 reads so far
2011-05-20 06:20:29,444 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:102990078-123010078
2011-05-20 06:20:32,312 - INFO - Processed 24600000 reads so far
2011-05-20 06:20:41,661 - INFO - Processed 24700000 reads so far
2011-05-20 06:20:48,937 - INFO - Processed 24800000 reads so far
2011-05-20 06:20:59,561 - INFO - Processed 24900000 reads so far
2011-05-20 06:21:11,576 - INFO - Processed 25000000 reads so far
2011-05-20 06:21:20,489 - INFO - Processed 25100000 reads so far
2011-05-20 06:21:29,091 - INFO - Processed 25200000 reads so far
2011-05-20 06:21:39,048 - INFO - Processed 25300000 reads so far
2011-05-20 06:21:48,541 - INFO - Processed 25400000 reads so far
2011-05-20 06:21:58,059 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13_random:0-20010000
2011-05-20 06:21:59,417 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:2990022-23010022
2011-05-20 06:21:59,642 - INFO - Processed 25500000 reads so far
2011-05-20 06:22:10,482 - INFO - Processed 25600000 reads so far
2011-05-20 06:22:17,656 - INFO - Processed 25700000 reads so far
2011-05-20 06:22:25,465 - INFO - Processed 25800000 reads so far
2011-05-20 06:22:35,684 - INFO - Processed 25900000 reads so far
2011-05-20 06:22:48,874 - INFO - Processed 26000000 reads so far
2011-05-20 06:22:57,101 - INFO - Processed 26100000 reads so far
2011-05-20 06:23:08,236 - INFO - Processed 26200000 reads so far
2011-05-20 06:23:19,770 - INFO - Processed 26300000 reads so far
2011-05-20 06:23:28,343 - INFO - Processed 26400000 reads so far
2011-05-20 06:23:41,003 - INFO - Processed 26500000 reads so far
2011-05-20 06:23:50,305 - INFO - Processed 26600000 reads so far
2011-05-20 06:23:50,499 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:22990035-43010035
2011-05-20 06:24:02,905 - INFO - Processed 26700000 reads so far
2011-05-20 06:24:14,453 - INFO - Processed 26800000 reads so far
2011-05-20 06:24:25,999 - INFO - Processed 26900000 reads so far
2011-05-20 06:24:40,367 - INFO - Processed 27000000 reads so far
2011-05-20 06:24:52,349 - INFO - Processed 27100000 reads so far
2011-05-20 06:25:03,850 - INFO - Processed 27200000 reads so far
2011-05-20 06:25:17,285 - INFO - Processed 27300000 reads so far
2011-05-20 06:25:29,490 - INFO - Processed 27400000 reads so far
2011-05-20 06:25:41,093 - INFO - Processed 27500000 reads so far
2011-05-20 06:25:53,311 - INFO - Processed 27600000 reads so far
2011-05-20 06:25:57,382 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:42990125-63010125
2011-05-20 06:26:05,191 - INFO - Processed 27700000 reads so far
2011-05-20 06:26:17,409 - INFO - Processed 27800000 reads so far
2011-05-20 06:26:30,136 - INFO - Processed 27900000 reads so far
2011-05-20 06:26:39,767 - INFO - Processed 28000000 reads so far
2011-05-20 06:26:51,217 - INFO - Processed 28100000 reads so far
2011-05-20 06:27:01,346 - INFO - Processed 28200000 reads so far
2011-05-20 06:27:09,435 - INFO - Processed 28300000 reads so far
2011-05-20 06:27:18,037 - INFO - Processed 28400000 reads so far
2011-05-20 06:27:30,545 - INFO - Processed 28500000 reads so far
2011-05-20 06:27:40,099 - INFO - Processed 28600000 reads so far
2011-05-20 06:27:49,419 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:62990127-83010127
2011-05-20 06:27:49,856 - INFO - Processed 28700000 reads so far
2011-05-20 06:27:58,154 - INFO - Processed 28800000 reads so far
2011-05-20 06:28:08,068 - INFO - Processed 28900000 reads so far
2011-05-20 06:28:17,192 - INFO - Processed 29000000 reads so far
2011-05-20 06:28:28,491 - INFO - Processed 29100000 reads so far
2011-05-20 06:28:38,290 - INFO - Processed 29200000 reads so far
2011-05-20 06:28:51,055 - INFO - Processed 29300000 reads so far
2011-05-20 06:28:59,059 - INFO - Processed 29400000 reads so far
2011-05-20 06:29:09,128 - INFO - Processed 29500000 reads so far
2011-05-20 06:29:17,255 - INFO - Processed 29600000 reads so far
2011-05-20 06:29:28,317 - INFO - Processed 29700000 reads so far
2011-05-20 06:29:33,692 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:82990139-103010139
2011-05-20 06:29:38,449 - INFO - Processed 29800000 reads so far
2011-05-20 06:29:49,818 - INFO - Processed 29900000 reads so far
2011-05-20 06:30:01,803 - INFO - Processed 30000000 reads so far
2011-05-20 06:30:12,489 - INFO - Processed 30100000 reads so far
2011-05-20 06:30:24,031 - INFO - Processed 30200000 reads so far
2011-05-20 06:30:32,961 - INFO - Processed 30300000 reads so far
2011-05-20 06:30:42,674 - INFO - Processed 30400000 reads so far
2011-05-20 06:30:54,763 - INFO - Processed 30500000 reads so far
2011-05-20 06:31:04,045 - INFO - Processed 30600000 reads so far
2011-05-20 06:31:15,221 - INFO - Processed 30700000 reads so far
2011-05-20 06:31:18,916 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:102990150-123010150
2011-05-20 06:31:27,066 - INFO - Processed 30800000 reads so far
2011-05-20 06:31:39,144 - INFO - Processed 30900000 reads so far
2011-05-20 06:31:50,456 - INFO - Processed 31000000 reads so far
2011-05-20 06:32:02,564 - INFO - Processed 31100000 reads so far
2011-05-20 06:32:13,866 - INFO - Processed 31200000 reads so far
2011-05-20 06:32:23,871 - INFO - Processed 31300000 reads so far
2011-05-20 06:32:33,524 - INFO - Processed 31400000 reads so far
2011-05-20 06:32:40,588 - INFO - Processed 31500000 reads so far
2011-05-20 06:32:50,705 - INFO - Processed 31600000 reads so far
2011-05-20 06:32:58,301 - INFO - Processed 31700000 reads so far
2011-05-20 06:33:06,348 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:122990171-143010171
2011-05-20 06:33:09,913 - INFO - Processed 31800000 reads so far
2011-05-20 06:33:19,446 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:2990007-23010007
2011-05-20 06:33:21,074 - INFO - Processed 31900000 reads so far
2011-05-20 06:33:30,559 - INFO - Processed 32000000 reads so far
2011-05-20 06:33:39,293 - INFO - Processed 32100000 reads so far
2011-05-20 06:33:49,055 - INFO - Processed 32200000 reads so far
2011-05-20 06:33:58,230 - INFO - Processed 32300000 reads so far
2011-05-20 06:34:06,841 - INFO - Processed 32400000 reads so far
2011-05-20 06:34:15,839 - INFO - Processed 32500000 reads so far
2011-05-20 06:34:26,256 - INFO - Processed 32600000 reads so far
2011-05-20 06:34:35,662 - INFO - Processed 32700000 reads so far
2011-05-20 06:34:45,755 - INFO - Processed 32800000 reads so far
2011-05-20 06:34:52,529 - INFO - Processed 32900000 reads so far
2011-05-20 06:34:53,193 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:22990029-43010029
2011-05-20 06:35:00,108 - INFO - Processed 33000000 reads so far
2011-05-20 06:35:08,313 - INFO - Processed 33100000 reads so far
2011-05-20 06:35:16,218 - INFO - Processed 33200000 reads so far
2011-05-20 06:35:22,978 - INFO - Processed 33300000 reads so far
2011-05-20 06:35:30,521 - INFO - Processed 33400000 reads so far
2011-05-20 06:35:37,288 - INFO - Processed 33500000 reads so far
2011-05-20 06:35:45,913 - INFO - Processed 33600000 reads so far
2011-05-20 06:35:56,526 - INFO - Processed 33700000 reads so far
2011-05-20 06:36:04,738 - INFO - Processed 33800000 reads so far
2011-05-20 06:36:13,084 - INFO - Processed 33900000 reads so far
2011-05-20 06:36:18,794 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:42990037-63010037
2011-05-20 06:36:20,526 - INFO - Processed 34000000 reads so far
2011-05-20 06:36:27,516 - INFO - Processed 34100000 reads so far
2011-05-20 06:36:35,030 - INFO - Processed 34200000 reads so far
2011-05-20 06:36:44,836 - INFO - Processed 34300000 reads so far
2011-05-20 06:36:54,614 - INFO - Processed 34400000 reads so far
2011-05-20 06:37:03,434 - INFO - Processed 34500000 reads so far
2011-05-20 06:37:12,037 - INFO - Processed 34600000 reads so far
2011-05-20 06:37:19,000 - INFO - Processed 34700000 reads so far
2011-05-20 06:37:27,229 - INFO - Processed 34800000 reads so far
2011-05-20 06:37:38,803 - INFO - Processed 34900000 reads so far
2011-05-20 06:37:48,225 - INFO - Processed 35000000 reads so far
2011-05-20 06:37:50,102 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:62990079-83010079
2011-05-20 06:37:56,053 - INFO - Processed 35100000 reads so far
2011-05-20 06:38:03,536 - INFO - Processed 35200000 reads so far
2011-05-20 06:38:10,668 - INFO - Processed 35300000 reads so far
2011-05-20 06:38:19,613 - INFO - Processed 35400000 reads so far
2011-05-20 06:38:27,767 - INFO - Processed 35500000 reads so far
2011-05-20 06:38:34,735 - INFO - Processed 35600000 reads so far
2011-05-20 06:38:41,016 - INFO - Processed 35700000 reads so far
2011-05-20 06:38:50,728 - INFO - Processed 35800000 reads so far
2011-05-20 06:38:58,446 - INFO - Processed 35900000 reads so far
2011-05-20 06:39:06,284 - INFO - Processed 36000000 reads so far
2011-05-20 06:39:14,605 - INFO - Processed 36100000 reads so far
2011-05-20 06:39:15,439 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:82990082-103010082
2011-05-20 06:39:21,590 - INFO - Processed 36200000 reads so far
2011-05-20 06:39:31,723 - INFO - Processed 36300000 reads so far
2011-05-20 06:39:39,892 - INFO - Processed 36400000 reads so far
2011-05-20 06:39:46,822 - INFO - Processed 36500000 reads so far
2011-05-20 06:39:53,655 - INFO - Processed 36600000 reads so far
2011-05-20 06:40:01,379 - INFO - Processed 36700000 reads so far
2011-05-20 06:40:11,604 - INFO - Processed 36800000 reads so far
2011-05-20 06:40:22,249 - INFO - Processed 36900000 reads so far
2011-05-20 06:40:30,427 - INFO - Processed 37000000 reads so far
2011-05-20 06:40:37,387 - INFO - Processed 37100000 reads so far
2011-05-20 06:40:41,514 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:102990103-123010103
2011-05-20 06:40:43,274 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16:2990027-23010027
2011-05-20 06:40:44,301 - INFO - Processed 37200000 reads so far
2011-05-20 06:40:52,464 - INFO - Processed 37300000 reads so far
2011-05-20 06:41:02,503 - INFO - Processed 37400000 reads so far
2011-05-20 06:41:09,767 - INFO - Processed 37500000 reads so far
2011-05-20 06:41:20,613 - INFO - Processed 37600000 reads so far
2011-05-20 06:41:30,975 - INFO - Processed 37700000 reads so far
2011-05-20 06:41:41,268 - INFO - Processed 37800000 reads so far
2011-05-20 06:41:50,315 - INFO - Processed 37900000 reads so far
2011-05-20 06:41:58,378 - INFO - Processed 38000000 reads so far
2011-05-20 06:42:09,817 - INFO - Processed 38100000 reads so far
2011-05-20 06:42:18,719 - INFO - Processed 38200000 reads so far
2011-05-20 06:42:27,399 - INFO - Processed 38300000 reads so far
2011-05-20 06:42:28,477 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16:22990033-43010033
2011-05-20 06:42:38,436 - INFO - Processed 38400000 reads so far
2011-05-20 06:42:49,397 - INFO - Processed 38500000 reads so far
2011-05-20 06:42:57,813 - INFO - Processed 38600000 reads so far
2011-05-20 06:43:09,315 - INFO - Processed 38700000 reads so far
2011-05-20 06:43:20,797 - INFO - Processed 38800000 reads so far
2011-05-20 06:43:31,680 - INFO - Processed 38900000 reads so far
2011-05-20 06:43:43,149 - INFO - Processed 39000000 reads so far
2011-05-20 06:43:53,630 - INFO - Processed 39100000 reads so far
2011-05-20 06:44:04,800 - INFO - Processed 39200000 reads so far
2011-05-20 06:44:15,144 - INFO - Processed 39300000 reads so far
2011-05-20 06:44:23,482 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16:42990034-63010034
2011-05-20 06:44:25,384 - INFO - Processed 39400000 reads so far
2011-05-20 06:44:36,742 - INFO - Processed 39500000 reads so far
2011-05-20 06:44:46,070 - INFO - Processed 39600000 reads so far
2011-05-20 06:44:55,789 - INFO - Processed 39700000 reads so far
2011-05-20 06:45:05,742 - INFO - Processed 39800000 reads so far
2011-05-20 06:45:14,039 - INFO - Processed 39900000 reads so far
2011-05-20 06:45:24,924 - INFO - Processed 40000000 reads so far
2011-05-20 06:45:33,130 - INFO - Processed 40100000 reads so far
2011-05-20 06:45:43,709 - INFO - Processed 40200000 reads so far
2011-05-20 06:45:51,204 - INFO - Processed 40300000 reads so far
2011-05-20 06:45:59,597 - INFO - Processed 40400000 reads so far
2011-05-20 06:46:00,836 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16:62990039-83010039
2011-05-20 06:46:11,091 - INFO - Processed 40500000 reads so far
2011-05-20 06:46:19,949 - INFO - Processed 40600000 reads so far
2011-05-20 06:46:29,415 - INFO - Processed 40700000 reads so far
2011-05-20 06:46:40,287 - INFO - Processed 40800000 reads so far
2011-05-20 06:46:51,334 - INFO - Processed 40900000 reads so far
2011-05-20 06:47:01,128 - INFO - Processed 41000000 reads so far
2011-05-20 06:47:09,093 - INFO - Processed 41100000 reads so far
2011-05-20 06:47:19,124 - INFO - Processed 41200000 reads so far
2011-05-20 06:47:26,873 - INFO - Processed 41300000 reads so far
2011-05-20 06:47:38,369 - INFO - Processed 41400000 reads so far
2011-05-20 06:47:41,025 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16:82990046-103010046
2011-05-20 06:47:47,048 - INFO - Processed 41500000 reads so far
2011-05-20 06:47:56,917 - INFO - Processed 41600000 reads so far
2011-05-20 06:48:05,274 - INFO - Processed 41700000 reads so far
2011-05-20 06:48:14,562 - INFO - Processed 41800000 reads so far
2011-05-20 06:48:25,513 - INFO - Processed 41900000 reads so far
2011-05-20 06:48:35,499 - INFO - Processed 42000000 reads so far
2011-05-20 06:48:45,095 - INFO - Processed 42100000 reads so far
2011-05-20 06:48:55,483 - INFO - Processed 42200000 reads so far
2011-05-20 06:48:58,470 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16_random:0-20010031
2011-05-20 06:48:58,502 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17:2989984-23009984
2011-05-20 06:49:06,123 - INFO - Processed 42300000 reads so far
2011-05-20 06:49:13,818 - INFO - Processed 42400000 reads so far
2011-05-20 06:49:22,960 - INFO - Processed 42500000 reads so far
2011-05-20 06:49:29,830 - INFO - Processed 42600000 reads so far
2011-05-20 06:49:40,456 - INFO - Processed 42700000 reads so far
2011-05-20 06:49:49,996 - INFO - Processed 42800000 reads so far
2011-05-20 06:50:00,748 - INFO - Processed 42900000 reads so far
2011-05-20 06:50:11,743 - INFO - Processed 43000000 reads so far
2011-05-20 06:50:22,203 - INFO - Processed 43100000 reads so far
2011-05-20 06:50:33,641 - INFO - Processed 43200000 reads so far
2011-05-20 06:50:43,621 - INFO - Processed 43300000 reads so far
2011-05-20 06:50:47,701 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17:22990062-43010062
2011-05-20 06:50:54,919 - INFO - Processed 43400000 reads so far
2011-05-20 06:51:04,171 - INFO - Processed 43500000 reads so far
2011-05-20 06:51:14,349 - INFO - Processed 43600000 reads so far
2011-05-20 06:51:27,812 - INFO - Processed 43700000 reads so far
2011-05-20 06:51:36,762 - INFO - Processed 43800000 reads so far
2011-05-20 06:51:48,149 - INFO - Processed 43900000 reads so far
2011-05-20 06:51:57,588 - INFO - Processed 44000000 reads so far
2011-05-20 06:52:08,546 - INFO - Processed 44100000 reads so far
2011-05-20 06:52:18,382 - INFO - Processed 44200000 reads so far
2011-05-20 06:52:28,411 - INFO - Processed 44300000 reads so far
2011-05-20 06:52:38,457 - INFO - Processed 44400000 reads so far
2011-05-20 06:52:44,873 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17:42990070-63010070
2011-05-20 06:52:48,893 - INFO - Processed 44500000 reads so far
2011-05-20 06:53:00,696 - INFO - Processed 44600000 reads so far
2011-05-20 06:53:12,098 - INFO - Processed 44700000 reads so far
2011-05-20 06:53:20,623 - INFO - Processed 44800000 reads so far
2011-05-20 06:53:31,108 - INFO - Processed 44900000 reads so far
2011-05-20 06:53:43,057 - INFO - Processed 45000000 reads so far
2011-05-20 06:53:50,346 - INFO - Processed 45100000 reads so far
2011-05-20 06:54:01,002 - INFO - Processed 45200000 reads so far
2011-05-20 06:54:12,217 - INFO - Processed 45300000 reads so far
2011-05-20 06:54:22,470 - INFO - Processed 45400000 reads so far
2011-05-20 06:54:30,419 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17:62990132-83010132
2011-05-20 06:54:33,314 - INFO - Processed 45500000 reads so far
2011-05-20 06:54:42,266 - INFO - Processed 45600000 reads so far
2011-05-20 06:54:53,324 - INFO - Processed 45700000 reads so far
2011-05-20 06:55:02,109 - INFO - Processed 45800000 reads so far
2011-05-20 06:55:12,280 - INFO - Processed 45900000 reads so far
2011-05-20 06:55:22,416 - INFO - Processed 46000000 reads so far
2011-05-20 06:55:32,550 - INFO - Processed 46100000 reads so far
2011-05-20 06:55:39,479 - INFO - Processed 46200000 reads so far
2011-05-20 06:55:49,125 - INFO - Processed 46300000 reads so far
2011-05-20 06:55:58,025 - INFO - Processed 46400000 reads so far
2011-05-20 06:56:07,524 - INFO - Processed 46500000 reads so far
2011-05-20 06:56:09,989 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17:82990134-103010134
2011-05-20 06:56:16,123 - INFO - Processed 46600000 reads so far
2011-05-20 06:56:25,826 - INFO - Processed 46700000 reads so far
2011-05-20 06:56:35,696 - INFO - Processed 46800000 reads so far
2011-05-20 06:56:42,479 - INFO - Processed 46900000 reads so far
2011-05-20 06:56:49,958 - INFO - Processed 47000000 reads so far
2011-05-20 06:57:00,610 - INFO - Processed 47100000 reads so far
2011-05-20 06:57:05,347 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17_random:0-20010033
2011-05-20 06:57:06,429 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr18:2989995-23009995
2011-05-20 06:57:07,427 - INFO - Processed 47200000 reads so far
2011-05-20 06:57:14,140 - INFO - Processed 47300000 reads so far
2011-05-20 06:57:21,990 - INFO - Processed 47400000 reads so far
2011-05-20 06:57:30,644 - INFO - Processed 47500000 reads so far
2011-05-20 06:57:40,274 - INFO - Processed 47600000 reads so far
2011-05-20 06:57:49,501 - INFO - Processed 47700000 reads so far
2011-05-20 06:57:57,823 - INFO - Processed 47800000 reads so far
2011-05-20 06:58:07,448 - INFO - Processed 47900000 reads so far
2011-05-20 06:58:17,337 - INFO - Processed 48000000 reads so far
2011-05-20 06:58:25,873 - INFO - Processed 48100000 reads so far
2011-05-20 06:58:34,457 - INFO - Processed 48200000 reads so far
2011-05-20 06:58:42,476 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr18:22989996-43009996
2011-05-20 06:58:42,790 - INFO - Processed 48300000 reads so far
2011-05-20 06:58:53,005 - INFO - Processed 48400000 reads so far
2011-05-20 06:59:01,538 - INFO - Processed 48500000 reads so far
2011-05-20 06:59:08,685 - INFO - Processed 48600000 reads so far
2011-05-20 06:59:16,166 - INFO - Processed 48700000 reads so far
2011-05-20 06:59:24,522 - INFO - Processed 48800000 reads so far
2011-05-20 06:59:35,240 - INFO - Processed 48900000 reads so far
2011-05-20 06:59:46,006 - INFO - Processed 49000000 reads so far
2011-05-20 06:59:54,400 - INFO - Processed 49100000 reads so far
2011-05-20 07:00:01,389 - INFO - Processed 49200000 reads so far
2011-05-20 07:00:09,844 - INFO - Processed 49300000 reads so far
2011-05-20 07:00:16,272 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr18:42990034-63010034
2011-05-20 07:00:18,657 - INFO - Processed 49400000 reads so far
2011-05-20 07:00:26,632 - INFO - Processed 49500000 reads so far
2011-05-20 07:00:34,255 - INFO - Processed 49600000 reads so far
2011-05-20 07:00:42,165 - INFO - Processed 49700000 reads so far
2011-05-20 07:00:49,537 - INFO - Processed 49800000 reads so far
2011-05-20 07:00:57,007 - INFO - Processed 49900000 reads so far
2011-05-20 07:01:05,710 - INFO - Processed 50000000 reads so far
2011-05-20 07:01:16,055 - INFO - Processed 50100000 reads so far
2011-05-20 07:01:25,031 - INFO - Processed 50200000 reads so far
2011-05-20 07:01:34,161 - INFO - Processed 50300000 reads so far
2011-05-20 07:01:43,629 - INFO - Processed 50400000 reads so far
2011-05-20 07:01:45,496 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr18:62990052-83010052
2011-05-20 07:01:52,984 - INFO - Processed 50500000 reads so far
2011-05-20 07:02:04,726 - INFO - Processed 50600000 reads so far
2011-05-20 07:02:14,664 - INFO - Processed 50700000 reads so far
2011-05-20 07:02:24,101 - INFO - Processed 50800000 reads so far
2011-05-20 07:02:34,508 - INFO - Processed 50900000 reads so far
2011-05-20 07:02:41,273 - INFO - Processed 51000000 reads so far
2011-05-20 07:02:52,398 - INFO - Processed 51100000 reads so far
2011-05-20 07:03:04,669 - INFO - Processed 51200000 reads so far
2011-05-20 07:03:15,002 - INFO - Processed 51300000 reads so far
2011-05-20 07:03:26,501 - INFO - Processed 51400000 reads so far
2011-05-20 07:03:34,032 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr18:82990066-103010066
2011-05-20 07:03:35,548 - INFO - Processed 51500000 reads so far
2011-05-20 07:03:42,344 - INFO - Processed 51600000 reads so far
2011-05-20 07:03:52,616 - INFO - Processed 51700000 reads so far
2011-05-20 07:04:01,759 - INFO - Processed 51800000 reads so far
2011-05-20 07:04:11,810 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr19:2990116-23010116
2011-05-20 07:04:12,913 - INFO - Processed 51900000 reads so far
2011-05-20 07:04:22,091 - INFO - Processed 52000000 reads so far
2011-05-20 07:04:33,210 - INFO - Processed 52100000 reads so far
2011-05-20 07:04:44,889 - INFO - Processed 52200000 reads so far
2011-05-20 07:04:56,347 - INFO - Processed 52300000 reads so far
2011-05-20 07:05:07,881 - INFO - Processed 52400000 reads so far
2011-05-20 07:05:16,903 - INFO - Processed 52500000 reads so far
2011-05-20 07:05:24,843 - INFO - Processed 52600000 reads so far
2011-05-20 07:05:36,164 - INFO - Processed 52700000 reads so far
2011-05-20 07:05:47,862 - INFO - Processed 52800000 reads so far
2011-05-20 07:05:59,322 - INFO - Processed 52900000 reads so far
2011-05-20 07:06:02,499 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr19:22990120-43010120
2011-05-20 07:06:07,132 - INFO - Processed 53000000 reads so far
2011-05-20 07:06:16,568 - INFO - Processed 53100000 reads so far
2011-05-20 07:06:27,739 - INFO - Processed 53200000 reads so far
2011-05-20 07:06:37,800 - INFO - Processed 53300000 reads so far
2011-05-20 07:06:47,839 - INFO - Processed 53400000 reads so far
2011-05-20 07:07:00,135 - INFO - Processed 53500000 reads so far
2011-05-20 07:07:12,275 - INFO - Processed 53600000 reads so far
2011-05-20 07:07:22,141 - INFO - Processed 53700000 reads so far
2011-05-20 07:07:31,613 - INFO - Processed 53800000 reads so far
2011-05-20 07:07:43,359 - INFO - Processed 53900000 reads so far
2011-05-20 07:07:52,800 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr19:42990130-63010130
2011-05-20 07:07:53,769 - INFO - Processed 54000000 reads so far
2011-05-20 07:08:01,179 - INFO - Processed 54100000 reads so far
2011-05-20 07:08:10,464 - INFO - Processed 54200000 reads so far
2011-05-20 07:08:17,661 - INFO - Processed 54300000 reads so far
2011-05-20 07:08:25,544 - INFO - Processed 54400000 reads so far
2011-05-20 07:08:33,829 - INFO - Processed 54500000 reads so far
2011-05-20 07:08:43,595 - INFO - Processed 54600000 reads so far
2011-05-20 07:08:54,892 - INFO - Processed 54700000 reads so far
2011-05-20 07:09:05,327 - INFO - Processed 54800000 reads so far
2011-05-20 07:09:17,171 - INFO - Processed 54900000 reads so far
2011-05-20 07:09:24,572 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:2989970-23009970
2011-05-20 07:09:28,601 - INFO - Processed 55000000 reads so far
2011-05-20 07:09:40,012 - INFO - Processed 55100000 reads so far
2011-05-20 07:09:48,341 - INFO - Processed 55200000 reads so far
2011-05-20 07:09:57,010 - INFO - Processed 55300000 reads so far
2011-05-20 07:10:15,996 - INFO - Processed 55400000 reads so far
2011-05-20 07:10:30,359 - INFO - Processed 55500000 reads so far
2011-05-20 07:10:38,569 - INFO - Processed 55600000 reads so far
2011-05-20 07:11:01,283 - INFO - Processed 55700000 reads so far
2011-05-20 07:11:12,307 - INFO - Processed 55800000 reads so far
2011-05-20 07:11:20,355 - INFO - Processed 55900000 reads so far
2011-05-20 07:11:29,711 - INFO - Processed 56000000 reads so far
2011-05-20 07:11:31,731 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:22989979-43009979
2011-05-20 07:11:42,472 - INFO - Processed 56100000 reads so far
2011-05-20 07:11:53,582 - INFO - Processed 56200000 reads so far
2011-05-20 07:12:04,457 - INFO - Processed 56300000 reads so far
2011-05-20 07:12:15,486 - INFO - Processed 56400000 reads so far
2011-05-20 07:12:28,025 - INFO - Processed 56500000 reads so far
2011-05-20 07:12:49,043 - INFO - Processed 56600000 reads so far
2011-05-20 07:12:59,135 - INFO - Processed 56700000 reads so far
2011-05-20 07:13:08,043 - INFO - Processed 56800000 reads so far
2011-05-20 07:13:21,966 - INFO - Processed 56900000 reads so far
2011-05-20 07:13:32,649 - INFO - Processed 57000000 reads so far
2011-05-20 07:13:44,792 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:42989988-63009988
2011-05-20 07:13:47,245 - INFO - Processed 57100000 reads so far
2011-05-20 07:13:56,472 - INFO - Processed 57200000 reads so far
2011-05-20 07:14:07,255 - INFO - Processed 57300000 reads so far
2011-05-20 07:14:18,489 - INFO - Processed 57400000 reads so far
2011-05-20 07:14:27,803 - INFO - Processed 57500000 reads so far
2011-05-20 07:14:39,272 - INFO - Processed 57600000 reads so far
2011-05-20 07:14:49,720 - INFO - Processed 57700000 reads so far
2011-05-20 07:14:59,916 - INFO - Processed 57800000 reads so far
2011-05-20 07:15:09,411 - INFO - Processed 57900000 reads so far
2011-05-20 07:15:19,746 - INFO - Processed 58000000 reads so far
2011-05-20 07:15:30,284 - INFO - Processed 58100000 reads so far
2011-05-20 07:15:33,528 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:62989992-83009992
2011-05-20 07:15:40,570 - INFO - Processed 58200000 reads so far
2011-05-20 07:15:52,847 - INFO - Processed 58300000 reads so far
2011-05-20 07:16:05,115 - INFO - Processed 58400000 reads so far
2011-05-20 07:16:17,032 - INFO - Processed 58500000 reads so far
2011-05-20 07:16:29,336 - INFO - Processed 58600000 reads so far
2011-05-20 07:16:41,158 - INFO - Processed 58700000 reads so far
2011-05-20 07:16:52,103 - INFO - Processed 58800000 reads so far
2011-05-20 07:17:02,779 - INFO - Processed 58900000 reads so far
2011-05-20 07:17:13,217 - INFO - Processed 59000000 reads so far
2011-05-20 07:17:23,789 - INFO - Processed 59100000 reads so far
2011-05-20 07:17:32,409 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:82990002-103010002
2011-05-20 07:17:34,439 - INFO - Processed 59200000 reads so far
2011-05-20 07:17:43,939 - INFO - Processed 59300000 reads so far
2011-05-20 07:17:53,222 - INFO - Processed 59400000 reads so far
2011-05-20 07:18:04,451 - INFO - Processed 59500000 reads so far
2011-05-20 07:18:15,287 - INFO - Processed 59600000 reads so far
2011-05-20 07:18:24,512 - INFO - Processed 59700000 reads so far
2011-05-20 07:18:34,249 - INFO - Processed 59800000 reads so far
2011-05-20 07:18:46,016 - INFO - Processed 59900000 reads so far
2011-05-20 07:18:56,622 - INFO - Processed 60000000 reads so far
2011-05-20 07:19:09,230 - INFO - Processed 60100000 reads so far
2011-05-20 07:19:21,514 - INFO - Processed 60200000 reads so far
2011-05-20 07:19:30,218 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:102990018-123010018
2011-05-20 07:19:32,908 - INFO - Processed 60300000 reads so far
2011-05-20 07:19:45,072 - INFO - Processed 60400000 reads so far
2011-05-20 07:19:54,552 - INFO - Processed 60500000 reads so far
2011-05-20 07:20:03,630 - INFO - Processed 60600000 reads so far
2011-05-20 07:20:14,379 - INFO - Processed 60700000 reads so far
2011-05-20 07:20:25,269 - INFO - Processed 60800000 reads so far
2011-05-20 07:20:34,392 - INFO - Processed 60900000 reads so far
2011-05-20 07:20:45,366 - INFO - Processed 61000000 reads so far
2011-05-20 07:20:58,360 - INFO - Processed 61100000 reads so far
2011-05-20 07:21:09,586 - INFO - Processed 61200000 reads so far
2011-05-20 07:21:19,480 - INFO - Processed 61300000 reads so far
2011-05-20 07:21:21,483 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:122990059-143010059
2011-05-20 07:21:30,783 - INFO - Processed 61400000 reads so far
2011-05-20 07:21:41,850 - INFO - Processed 61500000 reads so far
2011-05-20 07:21:53,428 - INFO - Processed 61600000 reads so far
2011-05-20 07:22:06,442 - INFO - Processed 61700000 reads so far
2011-05-20 07:22:16,199 - INFO - Processed 61800000 reads so far
2011-05-20 07:22:26,287 - INFO - Processed 61900000 reads so far
2011-05-20 07:22:37,842 - INFO - Processed 62000000 reads so far
2011-05-20 07:22:48,037 - INFO - Processed 62100000 reads so far
2011-05-20 07:22:58,697 - INFO - Processed 62200000 reads so far
2011-05-20 07:23:07,977 - INFO - Processed 62300000 reads so far
2011-05-20 07:23:15,469 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:142990066-163010066
2011-05-20 07:23:17,111 - INFO - Processed 62400000 reads so far
2011-05-20 07:23:27,718 - INFO - Processed 62500000 reads so far
2011-05-20 07:23:37,940 - INFO - Processed 62600000 reads so far
2011-05-20 07:23:49,013 - INFO - Processed 62700000 reads so far
2011-05-20 07:23:58,771 - INFO - Processed 62800000 reads so far
2011-05-20 07:24:08,870 - INFO - Processed 62900000 reads so far
2011-05-20 07:24:21,363 - INFO - Processed 63000000 reads so far
2011-05-20 07:24:31,622 - INFO - Processed 63100000 reads so far
2011-05-20 07:24:41,905 - INFO - Processed 63200000 reads so far
2011-05-20 07:24:53,879 - INFO - Processed 63300000 reads so far
2011-05-20 07:25:03,749 - INFO - Processed 63400000 reads so far
2011-05-20 07:25:03,990 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:162990088-183010088
2011-05-20 07:25:13,035 - INFO - Processed 63500000 reads so far
2011-05-20 07:25:22,671 - INFO - Processed 63600000 reads so far
2011-05-20 07:25:32,847 - INFO - Processed 63700000 reads so far
2011-05-20 07:25:43,848 - INFO - Processed 63800000 reads so far
2011-05-20 07:25:53,473 - INFO - Processed 63900000 reads so far
2011-05-20 07:26:03,351 - INFO - Processed 64000000 reads so far
2011-05-20 07:26:14,105 - INFO - Processed 64100000 reads so far
2011-05-20 07:26:27,778 - INFO - Processed 64200000 reads so far
2011-05-20 07:26:37,870 - INFO - Processed 64300000 reads so far
2011-05-20 07:26:47,996 - INFO - Processed 64400000 reads so far
2011-05-20 07:26:58,855 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:182990093-203010093
2011-05-20 07:27:01,511 - INFO - Processed 64500000 reads so far
2011-05-20 07:27:10,867 - INFO - Processed 64600000 reads so far
2011-05-20 07:27:20,192 - INFO - Processed 64700000 reads so far
2011-05-20 07:27:30,211 - INFO - Processed 64800000 reads so far
2011-05-20 07:27:40,039 - INFO - Processed 64900000 reads so far
2011-05-20 07:27:51,212 - INFO - Processed 65000000 reads so far
2011-05-20 07:28:02,905 - INFO - Processed 65100000 reads so far
2011-05-20 07:28:13,417 - INFO - Processed 65200000 reads so far
2011-05-20 07:28:15,647 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1_random:0-20010000
2011-05-20 07:28:22,690 - INFO - Processed 65300000 reads so far
2011-05-20 07:28:27,352 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:2990015-23010015
2011-05-20 07:28:31,223 - INFO - Processed 65400000 reads so far
2011-05-20 07:28:40,656 - INFO - Processed 65500000 reads so far
2011-05-20 07:28:50,345 - INFO - Processed 65600000 reads so far
2011-05-20 07:29:02,810 - INFO - Processed 65700000 reads so far
2011-05-20 07:29:12,576 - INFO - Processed 65800000 reads so far
2011-05-20 07:29:23,026 - INFO - Processed 65900000 reads so far
2011-05-20 07:29:31,734 - INFO - Processed 66000000 reads so far
2011-05-20 07:29:39,982 - INFO - Processed 66100000 reads so far
2011-05-20 07:29:51,224 - INFO - Processed 66200000 reads so far
2011-05-20 07:30:00,525 - INFO - Processed 66300000 reads so far
2011-05-20 07:30:11,246 - INFO - Processed 66400000 reads so far
2011-05-20 07:30:17,511 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:22990041-43010041
2011-05-20 07:30:24,008 - INFO - Processed 66500000 reads so far
2011-05-20 07:30:33,730 - INFO - Processed 66600000 reads so far
2011-05-20 07:30:45,234 - INFO - Processed 66700000 reads so far
2011-05-20 07:30:55,894 - INFO - Processed 66800000 reads so far
2011-05-20 07:31:06,492 - INFO - Processed 66900000 reads so far
2011-05-20 07:31:19,574 - INFO - Processed 67000000 reads so far
2011-05-20 07:31:35,823 - INFO - Processed 67100000 reads so far
2011-05-20 07:31:46,145 - INFO - Processed 67200000 reads so far
2011-05-20 07:31:56,852 - INFO - Processed 67300000 reads so far
2011-05-20 07:32:09,653 - INFO - Processed 67400000 reads so far
2011-05-20 07:32:17,485 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:42990045-63010045
2011-05-20 07:32:21,933 - INFO - Processed 67500000 reads so far
2011-05-20 07:32:31,509 - INFO - Processed 67600000 reads so far
2011-05-20 07:32:41,358 - INFO - Processed 67700000 reads so far
2011-05-20 07:32:51,546 - INFO - Processed 67800000 reads so far
2011-05-20 07:33:01,268 - INFO - Processed 67900000 reads so far
2011-05-20 07:33:11,496 - INFO - Processed 68000000 reads so far
2011-05-20 07:33:21,576 - INFO - Processed 68100000 reads so far
2011-05-20 07:33:31,770 - INFO - Processed 68200000 reads so far
2011-05-20 07:33:42,279 - INFO - Processed 68300000 reads so far
2011-05-20 07:33:52,073 - INFO - Processed 68400000 reads so far
2011-05-20 07:34:02,563 - INFO - Processed 68500000 reads so far
2011-05-20 07:34:05,479 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:62990069-83010069
2011-05-20 07:34:14,305 - INFO - Processed 68600000 reads so far
2011-05-20 07:34:24,398 - INFO - Processed 68700000 reads so far
2011-05-20 07:34:36,588 - INFO - Processed 68800000 reads so far
2011-05-20 07:34:46,289 - INFO - Processed 68900000 reads so far
2011-05-20 07:34:58,291 - INFO - Processed 69000000 reads so far
2011-05-20 07:35:16,564 - INFO - Processed 69100000 reads so far
2011-05-20 07:35:30,964 - INFO - Processed 69200000 reads so far
2011-05-20 07:35:46,050 - INFO - Processed 69300000 reads so far
2011-05-20 07:35:58,613 - INFO - Processed 69400000 reads so far
2011-05-20 07:36:08,674 - INFO - Processed 69500000 reads so far
2011-05-20 07:36:16,466 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:82990077-103010077
2011-05-20 07:36:20,366 - INFO - Processed 69600000 reads so far
2011-05-20 07:36:30,323 - INFO - Processed 69700000 reads so far
2011-05-20 07:36:40,445 - INFO - Processed 69800000 reads so far
2011-05-20 07:36:50,570 - INFO - Processed 69900000 reads so far
2011-05-20 07:37:01,724 - INFO - Processed 70000000 reads so far
2011-05-20 07:37:10,479 - INFO - Processed 70100000 reads so far
2011-05-20 07:37:20,291 - INFO - Processed 70200000 reads so far
2011-05-20 07:37:31,813 - INFO - Processed 70300000 reads so far
2011-05-20 07:37:39,871 - INFO - Processed 70400000 reads so far
2011-05-20 07:37:48,382 - INFO - Processed 70500000 reads so far
2011-05-20 07:37:56,656 - INFO - Processed 70600000 reads so far
2011-05-20 07:38:04,770 - INFO - Processed 70700000 reads so far
2011-05-20 07:38:13,821 - INFO - Processed 70800000 reads so far
2011-05-20 07:38:22,848 - INFO - Processed 70900000 reads so far
2011-05-20 07:38:34,245 - INFO - Processed 71000000 reads so far
2011-05-20 07:38:45,365 - INFO - Processed 71100000 reads so far
2011-05-20 07:38:54,749 - INFO - Processed 71200000 reads so far
2011-05-20 07:39:04,677 - INFO - Processed 71300000 reads so far
2011-05-20 07:39:12,164 - INFO - Processed 71400000 reads so far
2011-05-20 07:39:22,646 - INFO - Processed 71500000 reads so far
2011-05-20 07:39:30,634 - INFO - Processed 71600000 reads so far
2011-05-20 07:39:39,182 - INFO - Processed 71700000 reads so far
2011-05-20 07:39:49,460 - INFO - Processed 71800000 reads so far
2011-05-20 07:39:58,900 - INFO - Processed 71900000 reads so far
2011-05-20 07:40:06,677 - INFO - Processed 72000000 reads so far
2011-05-20 07:40:15,912 - INFO - Processed 72100000 reads so far
2011-05-20 07:40:23,802 - INFO - Processed 72200000 reads so far
2011-05-20 07:40:32,401 - INFO - Processed 72300000 reads so far
2011-05-20 07:40:40,091 - INFO - Processed 72400000 reads so far
2011-05-20 07:40:48,547 - INFO - Processed 72500000 reads so far
2011-05-20 07:40:56,769 - INFO - Processed 72600000 reads so far
2011-05-20 07:41:07,074 - INFO - Processed 72700000 reads so far
2011-05-20 07:41:14,913 - INFO - Processed 72800000 reads so far
2011-05-20 07:41:23,381 - INFO - Processed 72900000 reads so far
2011-05-20 07:41:30,947 - INFO - Processed 73000000 reads so far
2011-05-20 07:41:39,999 - INFO - Processed 73100000 reads so far
2011-05-20 07:41:47,875 - INFO - Processed 73200000 reads so far
2011-05-20 07:41:56,436 - INFO - Processed 73300000 reads so far
2011-05-20 07:42:05,581 - INFO - Processed 73400000 reads so far
2011-05-20 07:42:13,981 - INFO - Processed 73500000 reads so far
2011-05-20 07:42:20,966 - INFO - Processed 73600000 reads so far
2011-05-20 07:42:28,909 - INFO - Processed 73700000 reads so far
2011-05-20 07:42:35,776 - INFO - Processed 73800000 reads so far
2011-05-20 07:42:44,095 - INFO - Processed 73900000 reads so far
2011-05-20 07:42:50,963 - INFO - Processed 74000000 reads so far
2011-05-20 07:42:58,466 - INFO - Processed 74100000 reads so far
2011-05-20 07:43:07,568 - INFO - Processed 74200000 reads so far
2011-05-20 07:43:16,130 - INFO - Processed 74300000 reads so far
2011-05-20 07:43:24,544 - INFO - Processed 74400000 reads so far
2011-05-20 07:43:33,058 - INFO - Processed 74500000 reads so far
2011-05-20 07:43:41,325 - INFO - Processed 74600000 reads so far
2011-05-20 07:43:48,551 - INFO - Processed 74700000 reads so far
2011-05-20 07:43:55,622 - INFO - Processed 74800000 reads so far
2011-05-20 07:44:03,724 - INFO - Processed 74900000 reads so far
2011-05-20 07:44:14,489 - INFO - Processed 75000000 reads so far
2011-05-20 07:44:22,850 - INFO - Processed 75100000 reads so far
2011-05-20 07:44:31,341 - INFO - Processed 75200000 reads so far
2011-05-20 07:44:37,070 - INFO - Processed 75300000 reads so far
2011-05-20 07:44:46,217 - INFO - Processed 75400000 reads so far
2011-05-20 07:44:53,032 - INFO - Processed 75500000 reads so far
2011-05-20 07:45:00,447 - INFO - Processed 75600000 reads so far
2011-05-20 07:45:10,110 - INFO - Processed 75700000 reads so far
2011-05-20 07:45:18,084 - INFO - Processed 75800000 reads so far
2011-05-20 07:45:26,740 - INFO - Processed 75900000 reads so far
2011-05-20 07:45:35,451 - INFO - Processed 76000000 reads so far
2011-05-20 07:45:43,692 - INFO - Processed 76100000 reads so far
2011-05-20 07:45:53,312 - INFO - Processed 76200000 reads so far
2011-05-20 07:46:02,391 - INFO - Processed 76300000 reads so far
2011-05-20 07:46:11,844 - INFO - Processed 76400000 reads so far
2011-05-20 07:46:24,120 - INFO - Processed 76500000 reads so far
2011-05-20 07:46:35,292 - INFO - Processed 76600000 reads so far
2011-05-20 07:46:44,808 - INFO - Processed 76700000 reads so far
2011-05-20 07:46:54,322 - INFO - Processed 76800000 reads so far
2011-05-20 07:47:03,890 - INFO - Processed 76900000 reads so far
2011-05-20 07:47:13,537 - INFO - Processed 77000000 reads so far
2011-05-20 07:47:22,908 - INFO - Processed 77100000 reads so far
2011-05-20 07:47:32,399 - INFO - Processed 77200000 reads so far
2011-05-20 07:47:41,947 - INFO - Processed 77300000 reads so far
2011-05-20 07:47:52,671 - INFO - Processed 77400000 reads so far
2011-05-20 07:48:02,099 - INFO - Processed 77500000 reads so far
2011-05-20 07:48:13,052 - INFO - Processed 77600000 reads so far
2011-05-20 07:48:22,467 - INFO - Processed 77700000 reads so far
2011-05-20 07:48:31,772 - INFO - Processed 77800000 reads so far
2011-05-20 07:48:41,292 - INFO - Processed 77900000 reads so far
2011-05-20 07:48:50,693 - INFO - Processed 78000000 reads so far
2011-05-20 07:49:00,356 - INFO - Processed 78100000 reads so far
2011-05-20 07:49:09,096 - INFO - Processed 78200000 reads so far
2011-05-20 07:49:18,573 - INFO - Processed 78300000 reads so far
2011-05-20 07:49:28,392 - INFO - Processed 78400000 reads so far
2011-05-20 07:49:37,798 - INFO - Processed 78500000 reads so far
2011-05-20 07:49:47,509 - INFO - Processed 78600000 reads so far
2011-05-20 07:49:57,053 - INFO - Processed 78700000 reads so far
2011-05-20 07:50:06,579 - INFO - Processed 78800000 reads so far
2011-05-20 07:50:17,323 - INFO - Processed 78900000 reads so far
2011-05-20 07:50:26,293 - INFO - Processed 79000000 reads so far
2011-05-20 07:50:35,257 - INFO - Processed 79100000 reads so far
2011-05-20 07:50:45,427 - INFO - Processed 79200000 reads so far
2011-05-20 07:50:55,170 - INFO - Processed 79300000 reads so far
2011-05-20 07:51:04,545 - INFO - Processed 79400000 reads so far
2011-05-20 07:51:13,467 - INFO - Processed 79500000 reads so far
2011-05-20 07:51:20,826 - INFO - Processed 79600000 reads so far
2011-05-20 07:51:27,426 - INFO - Processed 79700000 reads so far
2011-05-20 07:51:33,858 - INFO - Processed 79800000 reads so far
2011-05-20 07:51:42,256 - INFO - Processed 79900000 reads so far
2011-05-20 07:51:50,245 - INFO - Processed 80000000 reads so far
2011-05-20 07:51:57,376 - INFO - Processed 80100000 reads so far
2011-05-20 07:52:04,319 - INFO - Processed 80200000 reads so far
2011-05-20 07:52:13,202 - INFO - Processed 80300000 reads so far
2011-05-20 07:52:20,907 - INFO - Processed 80400000 reads so far
2011-05-20 07:52:23,297 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:102990084-123010084
2011-05-20 07:52:29,706 - INFO - Processed 80500000 reads so far
2011-05-20 07:52:41,481 - INFO - Processed 80600000 reads so far
2011-05-20 07:52:50,722 - INFO - Processed 80700000 reads so far
2011-05-20 07:53:00,466 - INFO - Processed 80800000 reads so far
2011-05-20 07:53:10,228 - INFO - Processed 80900000 reads so far
2011-05-20 07:53:18,621 - INFO - Processed 81000000 reads so far
2011-05-20 07:53:26,637 - INFO - Processed 81100000 reads so far
2011-05-20 07:53:35,957 - INFO - Processed 81200000 reads so far
2011-05-20 07:53:44,194 - INFO - Processed 81300000 reads so far
2011-05-20 07:53:57,126 - INFO - Processed 81400000 reads so far
2011-05-20 07:54:04,634 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:122990180-143010180
2011-05-20 07:54:06,565 - INFO - Processed 81500000 reads so far
2011-05-20 07:54:16,083 - INFO - Processed 81600000 reads so far
2011-05-20 07:54:26,569 - INFO - Processed 81700000 reads so far
2011-05-20 07:54:35,676 - INFO - Processed 81800000 reads so far
2011-05-20 07:54:45,602 - INFO - Processed 81900000 reads so far
2011-05-20 07:54:57,561 - INFO - Processed 82000000 reads so far
2011-05-20 07:55:09,355 - INFO - Processed 82100000 reads so far
2011-05-20 07:55:20,453 - INFO - Processed 82200000 reads so far
2011-05-20 07:55:33,448 - INFO - Processed 82300000 reads so far
2011-05-20 07:55:44,227 - INFO - Processed 82400000 reads so far
2011-05-20 07:55:56,193 - INFO - Processed 82500000 reads so far
2011-05-20 07:56:01,950 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:142990199-163010199
2011-05-20 07:56:08,027 - INFO - Processed 82600000 reads so far
2011-05-20 07:56:18,844 - INFO - Processed 82700000 reads so far
2011-05-20 07:56:29,660 - INFO - Processed 82800000 reads so far
2011-05-20 07:56:38,073 - INFO - Processed 82900000 reads so far
2011-05-20 07:56:49,153 - INFO - Processed 83000000 reads so far
2011-05-20 07:57:00,755 - INFO - Processed 83100000 reads so far
2011-05-20 07:57:11,115 - INFO - Processed 83200000 reads so far
2011-05-20 07:57:20,799 - INFO - Processed 83300000 reads so far
2011-05-20 07:57:31,306 - INFO - Processed 83400000 reads so far
2011-05-20 07:57:40,590 - INFO - Processed 83500000 reads so far
2011-05-20 07:57:51,580 - INFO - Processed 83600000 reads so far
2011-05-20 07:57:52,358 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:162990220-183010220
2011-05-20 07:58:02,809 - INFO - Processed 83700000 reads so far
2011-05-20 07:58:13,543 - INFO - Processed 83800000 reads so far
2011-05-20 07:58:23,270 - INFO - Processed 83900000 reads so far
2011-05-20 07:58:33,412 - INFO - Processed 84000000 reads so far
2011-05-20 07:58:44,942 - INFO - Processed 84100000 reads so far
2011-05-20 07:58:54,234 - INFO - Processed 84200000 reads so far
2011-05-20 07:59:02,786 - INFO - Processed 84300000 reads so far
2011-05-20 07:59:12,429 - INFO - Processed 84400000 reads so far
2011-05-20 07:59:21,821 - INFO - Processed 84500000 reads so far
2011-05-20 07:59:30,924 - INFO - Processed 84600000 reads so far
2011-05-20 07:59:36,931 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:2989997-23009997
2011-05-20 07:59:39,101 - INFO - Processed 84700000 reads so far
2011-05-20 07:59:49,058 - INFO - Processed 84800000 reads so far
2011-05-20 07:59:58,067 - INFO - Processed 84900000 reads so far
2011-05-20 08:00:08,401 - INFO - Processed 85000000 reads so far
2011-05-20 08:00:17,426 - INFO - Processed 85100000 reads so far
2011-05-20 08:00:25,904 - INFO - Processed 85200000 reads so far
2011-05-20 08:00:35,029 - INFO - Processed 85300000 reads so far
2011-05-20 08:00:43,435 - INFO - Processed 85400000 reads so far
2011-05-20 08:00:52,358 - INFO - Processed 85500000 reads so far
2011-05-20 08:01:03,977 - INFO - Processed 85600000 reads so far
2011-05-20 08:01:13,752 - INFO - Processed 85700000 reads so far
2011-05-20 08:01:17,537 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:22990012-43010012
2011-05-20 08:01:25,590 - INFO - Processed 85800000 reads so far
2011-05-20 08:01:35,502 - INFO - Processed 85900000 reads so far
2011-05-20 08:01:45,242 - INFO - Processed 86000000 reads so far
2011-05-20 08:01:56,053 - INFO - Processed 86100000 reads so far
2011-05-20 08:02:04,899 - INFO - Processed 86200000 reads so far
2011-05-20 08:02:13,593 - INFO - Processed 86300000 reads so far
2011-05-20 08:02:23,111 - INFO - Processed 86400000 reads so far
2011-05-20 08:02:33,066 - INFO - Processed 86500000 reads so far
2011-05-20 08:02:40,035 - INFO - Processed 86600000 reads so far
2011-05-20 08:02:50,062 - INFO - Processed 86700000 reads so far
2011-05-20 08:02:58,061 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:42990020-63010020
2011-05-20 08:02:58,400 - INFO - Processed 86800000 reads so far
2011-05-20 08:03:05,549 - INFO - Processed 86900000 reads so far
2011-05-20 08:03:12,707 - INFO - Processed 87000000 reads so far
2011-05-20 08:03:23,375 - INFO - Processed 87100000 reads so far
2011-05-20 08:03:32,079 - INFO - Processed 87200000 reads so far
2011-05-20 08:03:44,052 - INFO - Processed 87300000 reads so far
2011-05-20 08:03:55,390 - INFO - Processed 87400000 reads so far
2011-05-20 08:04:07,591 - INFO - Processed 87500000 reads so far
2011-05-20 08:04:18,322 - INFO - Processed 87600000 reads so far
2011-05-20 08:04:29,677 - INFO - Processed 87700000 reads so far
2011-05-20 08:04:42,412 - INFO - Processed 87800000 reads so far
2011-05-20 08:04:45,390 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:62990037-83010037
2011-05-20 08:04:53,388 - INFO - Processed 87900000 reads so far
2011-05-20 08:05:04,109 - INFO - Processed 88000000 reads so far
2011-05-20 08:05:16,554 - INFO - Processed 88100000 reads so far
2011-05-20 08:05:29,362 - INFO - Processed 88200000 reads so far
2011-05-20 08:05:41,066 - INFO - Processed 88300000 reads so far
2011-05-20 08:05:52,547 - INFO - Processed 88400000 reads so far
2011-05-20 08:05:59,389 - INFO - Processed 88500000 reads so far
2011-05-20 08:06:09,038 - INFO - Processed 88600000 reads so far
2011-05-20 08:06:16,793 - INFO - Processed 88700000 reads so far
2011-05-20 08:06:27,518 - INFO - Processed 88800000 reads so far
2011-05-20 08:06:33,922 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:82990040-103010040
2011-05-20 08:06:36,276 - INFO - Processed 88900000 reads so far
2011-05-20 08:06:44,551 - INFO - Processed 89000000 reads so far
2011-05-20 08:06:55,595 - INFO - Processed 89100000 reads so far
2011-05-20 08:07:06,126 - INFO - Processed 89200000 reads so far
2011-05-20 08:07:17,051 - INFO - Processed 89300000 reads so far
2011-05-20 08:07:25,906 - INFO - Processed 89400000 reads so far
2011-05-20 08:07:33,127 - INFO - Processed 89500000 reads so far
2011-05-20 08:07:42,102 - INFO - Processed 89600000 reads so far
2011-05-20 08:07:53,144 - INFO - Processed 89700000 reads so far
2011-05-20 08:08:04,205 - INFO - Processed 89800000 reads so far
2011-05-20 08:08:12,914 - INFO - Processed 89900000 reads so far
2011-05-20 08:08:14,463 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:102990047-123010047
2011-05-20 08:08:24,417 - INFO - Processed 90000000 reads so far
2011-05-20 08:08:35,035 - INFO - Processed 90100000 reads so far
2011-05-20 08:08:45,418 - INFO - Processed 90200000 reads so far
2011-05-20 08:08:52,435 - INFO - Processed 90300000 reads so far
2011-05-20 08:08:59,312 - INFO - Processed 90400000 reads so far
2011-05-20 08:09:08,280 - INFO - Processed 90500000 reads so far
2011-05-20 08:09:20,340 - INFO - Processed 90600000 reads so far
2011-05-20 08:09:37,086 - INFO - Processed 90700000 reads so far
2011-05-20 08:09:43,914 - INFO - Processed 90800000 reads so far
2011-05-20 08:09:52,517 - INFO - Processed 90900000 reads so far
2011-05-20 08:10:03,828 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:122990167-143010167
2011-05-20 08:10:07,072 - INFO - Processed 91000000 reads so far
2011-05-20 08:10:17,397 - INFO - Processed 91100000 reads so far
2011-05-20 08:10:28,157 - INFO - Processed 91200000 reads so far
2011-05-20 08:10:35,007 - INFO - Processed 91300000 reads so far
2011-05-20 08:10:45,014 - INFO - Processed 91400000 reads so far
2011-05-20 08:10:58,135 - INFO - Processed 91500000 reads so far
2011-05-20 08:11:06,325 - INFO - Processed 91600000 reads so far
2011-05-20 08:11:17,357 - INFO - Processed 91700000 reads so far
2011-05-20 08:11:30,577 - INFO - Processed 91800000 reads so far
2011-05-20 08:11:41,750 - INFO - Processed 91900000 reads so far
2011-05-20 08:11:52,643 - INFO - Processed 92000000 reads so far
2011-05-20 08:11:54,191 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:142990175-163010175
2011-05-20 08:11:59,528 - INFO - Processed 92100000 reads so far
2011-05-20 08:12:08,507 - INFO - Processed 92200000 reads so far
2011-05-20 08:12:15,969 - INFO - Processed 92300000 reads so far
2011-05-20 08:12:27,267 - INFO - Processed 92400000 reads so far
2011-05-20 08:12:36,813 - INFO - Processed 92500000 reads so far
2011-05-20 08:12:43,670 - INFO - Processed 92600000 reads so far
2011-05-20 08:12:50,668 - INFO - Processed 92700000 reads so far
2011-05-20 08:12:57,429 - INFO - Processed 92800000 reads so far
2011-05-20 08:13:07,175 - INFO - Processed 92900000 reads so far
2011-05-20 08:13:09,129 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3_random:0-20010021
2011-05-20 08:13:09,253 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:2989994-23009994
2011-05-20 08:13:17,225 - INFO - Processed 93000000 reads so far
2011-05-20 08:13:24,092 - INFO - Processed 93100000 reads so far
2011-05-20 08:13:32,037 - INFO - Processed 93200000 reads so far
2011-05-20 08:13:40,362 - INFO - Processed 93300000 reads so far
2011-05-20 08:13:48,557 - INFO - Processed 93400000 reads so far
2011-05-20 08:13:55,384 - INFO - Processed 93500000 reads so far
2011-05-20 08:14:03,140 - INFO - Processed 93600000 reads so far
2011-05-20 08:14:11,556 - INFO - Processed 93700000 reads so far
2011-05-20 08:14:22,306 - INFO - Processed 93800000 reads so far
2011-05-20 08:14:29,797 - INFO - Processed 93900000 reads so far
2011-05-20 08:14:39,230 - INFO - Processed 94000000 reads so far
2011-05-20 08:14:39,918 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:22990016-43010016
2011-05-20 08:14:48,364 - INFO - Processed 94100000 reads so far
2011-05-20 08:14:57,063 - INFO - Processed 94200000 reads so far
2011-05-20 08:15:06,698 - INFO - Processed 94300000 reads so far
2011-05-20 08:15:14,703 - INFO - Processed 94400000 reads so far
2011-05-20 08:15:22,177 - INFO - Processed 94500000 reads so far
2011-05-20 08:15:31,706 - INFO - Processed 94600000 reads so far
2011-05-20 08:15:38,495 - INFO - Processed 94700000 reads so far
2011-05-20 08:15:47,944 - INFO - Processed 94800000 reads so far
2011-05-20 08:15:54,951 - INFO - Processed 94900000 reads so far
2011-05-20 08:16:04,610 - INFO - Processed 95000000 reads so far
2011-05-20 08:16:05,892 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:42990018-63010018
2011-05-20 08:16:15,675 - INFO - Processed 95100000 reads so far
2011-05-20 08:16:25,627 - INFO - Processed 95200000 reads so far
2011-05-20 08:16:39,383 - INFO - Processed 95300000 reads so far
2011-05-20 08:16:51,367 - INFO - Processed 95400000 reads so far
2011-05-20 08:17:03,304 - INFO - Processed 95500000 reads so far
2011-05-20 08:17:14,548 - INFO - Processed 95600000 reads so far
2011-05-20 08:17:25,933 - INFO - Processed 95700000 reads so far
2011-05-20 08:17:36,164 - INFO - Processed 95800000 reads so far
2011-05-20 08:17:43,078 - INFO - Processed 95900000 reads so far
2011-05-20 08:17:51,549 - INFO - Processed 96000000 reads so far
2011-05-20 08:17:56,104 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:62990026-83010026
2011-05-20 08:17:58,602 - INFO - Processed 96100000 reads so far
2011-05-20 08:18:05,405 - INFO - Processed 96200000 reads so far
2011-05-20 08:18:15,455 - INFO - Processed 96300000 reads so far
2011-05-20 08:18:25,863 - INFO - Processed 96400000 reads so far
2011-05-20 08:18:37,770 - INFO - Processed 96500000 reads so far
2011-05-20 08:18:47,512 - INFO - Processed 96600000 reads so far
2011-05-20 08:18:56,301 - INFO - Processed 96700000 reads so far
2011-05-20 08:19:07,611 - INFO - Processed 96800000 reads so far
2011-05-20 08:19:18,508 - INFO - Processed 96900000 reads so far
2011-05-20 08:19:29,237 - INFO - Processed 97000000 reads so far
2011-05-20 08:19:36,494 - INFO - Processed 97100000 reads so far
2011-05-20 08:19:38,432 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:82990054-103010054
2011-05-20 08:19:43,440 - INFO - Processed 97200000 reads so far
2011-05-20 08:19:50,455 - INFO - Processed 97300000 reads so far
2011-05-20 08:19:57,907 - INFO - Processed 97400000 reads so far
2011-05-20 08:20:08,543 - INFO - Processed 97500000 reads so far
2011-05-20 08:20:20,922 - INFO - Processed 97600000 reads so far
2011-05-20 08:20:32,173 - INFO - Processed 97700000 reads so far
2011-05-20 08:20:38,896 - INFO - Processed 97800000 reads so far
2011-05-20 08:20:49,147 - INFO - Processed 97900000 reads so far
2011-05-20 08:20:58,466 - INFO - Processed 98000000 reads so far
2011-05-20 08:21:07,399 - INFO - Processed 98100000 reads so far
2011-05-20 08:21:19,179 - INFO - Processed 98200000 reads so far
2011-05-20 08:21:19,336 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:102990065-123010065
2011-05-20 08:21:30,836 - INFO - Processed 98300000 reads so far
2011-05-20 08:21:41,379 - INFO - Processed 98400000 reads so far
2011-05-20 08:21:49,851 - INFO - Processed 98500000 reads so far
2011-05-20 08:21:56,722 - INFO - Processed 98600000 reads so far
2011-05-20 08:22:05,348 - INFO - Processed 98700000 reads so far
2011-05-20 08:22:13,322 - INFO - Processed 98800000 reads so far
2011-05-20 08:22:24,287 - INFO - Processed 98900000 reads so far
2011-05-20 08:22:33,182 - INFO - Processed 99000000 reads so far
2011-05-20 08:22:40,128 - INFO - Processed 99100000 reads so far
2011-05-20 08:22:49,109 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:122990075-143010075
2011-05-20 08:22:51,752 - INFO - Processed 99200000 reads so far
2011-05-20 08:23:01,651 - INFO - Processed 99300000 reads so far
2011-05-20 08:23:10,909 - INFO - Processed 99400000 reads so far
2011-05-20 08:23:23,908 - INFO - Processed 99500000 reads so far
2011-05-20 08:23:35,665 - INFO - Processed 99600000 reads so far
2011-05-20 08:23:47,883 - INFO - Processed 99700000 reads so far
2011-05-20 08:23:59,505 - INFO - Processed 99800000 reads so far
2011-05-20 08:24:12,145 - INFO - Processed 99900000 reads so far
2011-05-20 08:24:24,174 - INFO - Processed 100000000 reads so far
2011-05-20 08:24:35,890 - INFO - Processed 100100000 reads so far
2011-05-20 08:24:45,876 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:142990077-163010077
2011-05-20 08:24:48,057 - INFO - Processed 100200000 reads so far
2011-05-20 08:25:00,596 - INFO - Processed 100300000 reads so far
2011-05-20 08:25:12,852 - INFO - Processed 100400000 reads so far
2011-05-20 08:25:23,187 - INFO - Processed 100500000 reads so far
2011-05-20 08:25:33,469 - INFO - Processed 100600000 reads so far
2011-05-20 08:25:45,772 - INFO - Processed 100700000 reads so far
2011-05-20 08:25:57,389 - INFO - Processed 100800000 reads so far
2011-05-20 08:26:08,804 - INFO - Processed 100900000 reads so far
2011-05-20 08:26:21,011 - INFO - Processed 101000000 reads so far
2011-05-20 08:26:25,449 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4_random:0-20010013
2011-05-20 08:26:26,728 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:2989999-23009999
2011-05-20 08:26:32,562 - INFO - Processed 101100000 reads so far
2011-05-20 08:26:43,918 - INFO - Processed 101200000 reads so far
2011-05-20 08:26:55,208 - INFO - Processed 101300000 reads so far
2011-05-20 08:27:06,606 - INFO - Processed 101400000 reads so far
2011-05-20 08:27:19,219 - INFO - Processed 101500000 reads so far
2011-05-20 08:27:30,548 - INFO - Processed 101600000 reads so far
2011-05-20 08:27:40,757 - INFO - Processed 101700000 reads so far
2011-05-20 08:27:48,312 - INFO - Processed 101800000 reads so far
2011-05-20 08:27:59,213 - INFO - Processed 101900000 reads so far
2011-05-20 08:28:07,546 - INFO - Processed 102000000 reads so far
2011-05-20 08:28:17,281 - INFO - Processed 102100000 reads so far
2011-05-20 08:28:21,741 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:22990022-43010022
2011-05-20 08:28:29,005 - INFO - Processed 102200000 reads so far
2011-05-20 08:28:37,793 - INFO - Processed 102300000 reads so far
2011-05-20 08:28:46,053 - INFO - Processed 102400000 reads so far
2011-05-20 08:28:55,324 - INFO - Processed 102500000 reads so far
2011-05-20 08:29:05,057 - INFO - Processed 102600000 reads so far
2011-05-20 08:29:15,590 - INFO - Processed 102700000 reads so far
2011-05-20 08:29:25,192 - INFO - Processed 102800000 reads so far
2011-05-20 08:29:36,124 - INFO - Processed 102900000 reads so far
2011-05-20 08:29:44,956 - INFO - Processed 103000000 reads so far
2011-05-20 08:29:54,047 - INFO - Processed 103100000 reads so far
2011-05-20 08:30:04,282 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:42990034-63010034
2011-05-20 08:30:07,051 - INFO - Processed 103200000 reads so far
2011-05-20 08:30:16,545 - INFO - Processed 103300000 reads so far
2011-05-20 08:30:25,821 - INFO - Processed 103400000 reads so far
2011-05-20 08:30:35,414 - INFO - Processed 103500000 reads so far
2011-05-20 08:30:43,557 - INFO - Processed 103600000 reads so far
2011-05-20 08:30:56,802 - INFO - Processed 103700000 reads so far
2011-05-20 08:31:04,813 - INFO - Processed 103800000 reads so far
2011-05-20 08:31:15,215 - INFO - Processed 103900000 reads so far
2011-05-20 08:31:25,873 - INFO - Processed 104000000 reads so far
2011-05-20 08:31:37,259 - INFO - Processed 104100000 reads so far
2011-05-20 08:31:47,115 - INFO - Processed 104200000 reads so far
2011-05-20 08:31:47,490 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:62990068-83010068
2011-05-20 08:31:54,275 - INFO - Processed 104300000 reads so far
2011-05-20 08:32:06,898 - INFO - Processed 104400000 reads so far
2011-05-20 08:32:15,291 - INFO - Processed 104500000 reads so far
2011-05-20 08:32:25,622 - INFO - Processed 104600000 reads so far
2011-05-20 08:32:36,507 - INFO - Processed 104700000 reads so far
2011-05-20 08:32:44,519 - INFO - Processed 104800000 reads so far
2011-05-20 08:32:53,974 - INFO - Processed 104900000 reads so far
2011-05-20 08:33:02,593 - INFO - Processed 105000000 reads so far
2011-05-20 08:33:14,223 - INFO - Processed 105100000 reads so far
2011-05-20 08:33:23,365 - INFO - Processed 105200000 reads so far
2011-05-20 08:33:26,186 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:82990093-103010093
2011-05-20 08:33:31,839 - INFO - Processed 105300000 reads so far
2011-05-20 08:33:42,658 - INFO - Processed 105400000 reads so far
2011-05-20 08:33:51,006 - INFO - Processed 105500000 reads so far
2011-05-20 08:34:01,418 - INFO - Processed 105600000 reads so far
2011-05-20 08:34:11,576 - INFO - Processed 105700000 reads so far
2011-05-20 08:34:20,259 - INFO - Processed 105800000 reads so far
2011-05-20 08:34:31,023 - INFO - Processed 105900000 reads so far
2011-05-20 08:34:41,054 - INFO - Processed 106000000 reads so far
2011-05-20 08:34:49,805 - INFO - Processed 106100000 reads so far
2011-05-20 08:35:01,541 - INFO - Processed 106200000 reads so far
2011-05-20 08:35:07,001 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:102990125-123010125
2011-05-20 08:35:10,641 - INFO - Processed 106300000 reads so far
2011-05-20 08:35:20,293 - INFO - Processed 106400000 reads so far
2011-05-20 08:35:32,270 - INFO - Processed 106500000 reads so far
2011-05-20 08:35:42,818 - INFO - Processed 106600000 reads so far
2011-05-20 08:35:54,222 - INFO - Processed 106700000 reads so far
2011-05-20 08:36:04,908 - INFO - Processed 106800000 reads so far
2011-05-20 08:36:14,212 - INFO - Processed 106900000 reads so far
2011-05-20 08:36:23,673 - INFO - Processed 107000000 reads so far
2011-05-20 08:36:34,258 - INFO - Processed 107100000 reads so far
2011-05-20 08:36:44,338 - INFO - Processed 107200000 reads so far
2011-05-20 08:36:56,044 - INFO - Processed 107300000 reads so far
2011-05-20 08:36:56,516 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:122990138-143010138
2011-05-20 08:37:07,800 - INFO - Processed 107400000 reads so far
2011-05-20 08:37:19,726 - INFO - Processed 107500000 reads so far
2011-05-20 08:37:31,023 - INFO - Processed 107600000 reads so far
2011-05-20 08:37:42,541 - INFO - Processed 107700000 reads so far
2011-05-20 08:37:54,258 - INFO - Processed 107800000 reads so far
2011-05-20 08:38:05,509 - INFO - Processed 107900000 reads so far
2011-05-20 08:38:20,165 - INFO - Processed 108000000 reads so far
2011-05-20 08:38:32,024 - INFO - Processed 108100000 reads so far
2011-05-20 08:38:43,525 - INFO - Processed 108200000 reads so far
2011-05-20 08:38:56,306 - INFO - Processed 108300000 reads so far
2011-05-20 08:39:00,146 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:142990141-163010141
2011-05-20 08:39:08,316 - INFO - Processed 108400000 reads so far
2011-05-20 08:39:20,789 - INFO - Processed 108500000 reads so far
2011-05-20 08:39:33,569 - INFO - Processed 108600000 reads so far
2011-05-20 08:39:44,937 - INFO - Processed 108700000 reads so far
2011-05-20 08:39:56,432 - INFO - Processed 108800000 reads so far
2011-05-20 08:39:59,435 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5_random:0-20010207
2011-05-20 08:39:59,873 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:2989993-23009993
2011-05-20 08:40:08,421 - INFO - Processed 108900000 reads so far
2011-05-20 08:40:21,656 - INFO - Processed 109000000 reads so far
2011-05-20 08:40:31,377 - INFO - Processed 109100000 reads so far
2011-05-20 08:40:44,615 - INFO - Processed 109200000 reads so far
2011-05-20 08:40:56,889 - INFO - Processed 109300000 reads so far
2011-05-20 08:41:07,429 - INFO - Processed 109400000 reads so far
2011-05-20 08:41:19,312 - INFO - Processed 109500000 reads so far
2011-05-20 08:41:30,576 - INFO - Processed 109600000 reads so far
2011-05-20 08:41:42,116 - INFO - Processed 109700000 reads so far
2011-05-20 08:41:55,194 - INFO - Processed 109800000 reads so far
2011-05-20 08:42:03,570 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:22989999-43009999
2011-05-20 08:42:06,636 - INFO - Processed 109900000 reads so far
2011-05-20 08:42:17,852 - INFO - Processed 110000000 reads so far
2011-05-20 08:42:28,700 - INFO - Processed 110100000 reads so far
2011-05-20 08:42:40,217 - INFO - Processed 110200000 reads so far
2011-05-20 08:42:51,631 - INFO - Processed 110300000 reads so far
2011-05-20 08:43:02,535 - INFO - Processed 110400000 reads so far
2011-05-20 08:43:14,089 - INFO - Processed 110500000 reads so far
2011-05-20 08:43:25,102 - INFO - Processed 110600000 reads so far
2011-05-20 08:43:36,112 - INFO - Processed 110700000 reads so far
2011-05-20 08:43:47,953 - INFO - Processed 110800000 reads so far
2011-05-20 08:44:00,668 - INFO - Processed 110900000 reads so far
2011-05-20 08:44:04,420 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:42990007-63010007
2011-05-20 08:44:19,334 - INFO - Processed 111000000 reads so far
2011-05-20 08:44:31,101 - INFO - Processed 111100000 reads so far
2011-05-20 08:44:42,429 - INFO - Processed 111200000 reads so far
2011-05-20 08:44:53,704 - INFO - Processed 111300000 reads so far
2011-05-20 08:45:07,100 - INFO - Processed 111400000 reads so far
2011-05-20 08:45:18,106 - INFO - Processed 111500000 reads so far
2011-05-20 08:45:30,284 - INFO - Processed 111600000 reads so far
2011-05-20 08:45:41,260 - INFO - Processed 111700000 reads so far
2011-05-20 08:45:55,317 - INFO - Processed 111800000 reads so far
2011-05-20 08:46:05,998 - INFO - Processed 111900000 reads so far
2011-05-20 08:46:18,585 - INFO - Processed 112000000 reads so far
2011-05-20 08:46:19,161 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:62990031-83010031
2011-05-20 08:46:32,526 - INFO - Processed 112100000 reads so far
2011-05-20 08:46:45,324 - INFO - Processed 112200000 reads so far
2011-05-20 08:46:56,464 - INFO - Processed 112300000 reads so far
2011-05-20 08:47:09,149 - INFO - Processed 112400000 reads so far
2011-05-20 08:47:20,563 - INFO - Processed 112500000 reads so far
2011-05-20 08:47:32,216 - INFO - Processed 112600000 reads so far
2011-05-20 08:47:43,481 - INFO - Processed 112700000 reads so far
2011-05-20 08:47:55,978 - INFO - Processed 112800000 reads so far
2011-05-20 08:48:07,410 - INFO - Processed 112900000 reads so far
2011-05-20 08:48:19,229 - INFO - Processed 113000000 reads so far
2011-05-20 08:48:23,769 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:82990033-103010033
2011-05-20 08:48:31,122 - INFO - Processed 113100000 reads so far
2011-05-20 08:48:40,032 - INFO - Processed 113200000 reads so far
2011-05-20 08:48:50,726 - INFO - Processed 113300000 reads so far
2011-05-20 08:49:02,020 - INFO - Processed 113400000 reads so far
2011-05-20 08:49:12,061 - INFO - Processed 113500000 reads so far
2011-05-20 08:49:19,809 - INFO - Processed 113600000 reads so far
2011-05-20 08:49:27,785 - INFO - Processed 113700000 reads so far
2011-05-20 08:49:37,531 - INFO - Processed 113800000 reads so far
2011-05-20 08:49:47,116 - INFO - Processed 113900000 reads so far
2011-05-20 08:49:56,457 - INFO - Processed 114000000 reads so far
2011-05-20 08:50:04,966 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:102990041-123010041
2011-05-20 08:50:05,351 - INFO - Processed 114100000 reads so far
2011-05-20 08:50:14,066 - INFO - Processed 114200000 reads so far
2011-05-20 08:50:21,713 - INFO - Processed 114300000 reads so far
2011-05-20 08:50:33,472 - INFO - Processed 114400000 reads so far
2011-05-20 08:50:43,517 - INFO - Processed 114500000 reads so far
2011-05-20 08:50:53,275 - INFO - Processed 114600000 reads so far
2011-05-20 08:51:02,995 - INFO - Processed 114700000 reads so far
2011-05-20 08:51:13,276 - INFO - Processed 114800000 reads so far
2011-05-20 08:51:22,878 - INFO - Processed 114900000 reads so far
2011-05-20 08:51:32,553 - INFO - Processed 115000000 reads so far
2011-05-20 08:51:42,959 - INFO - Processed 115100000 reads so far
2011-05-20 08:51:54,049 - INFO - Processed 115200000 reads so far
2011-05-20 08:52:06,206 - INFO - Processed 115300000 reads so far
2011-05-20 08:52:17,577 - INFO - Processed 115400000 reads so far
2011-05-20 08:52:28,793 - INFO - Processed 115500000 reads so far
2011-05-20 08:52:41,161 - INFO - Processed 115600000 reads so far
2011-05-20 08:52:52,639 - INFO - Processed 115700000 reads so far
2011-05-20 08:53:03,957 - INFO - Processed 115800000 reads so far
2011-05-20 08:53:15,487 - INFO - Processed 115900000 reads so far
2011-05-20 08:53:27,253 - INFO - Processed 116000000 reads so far
2011-05-20 08:53:38,625 - INFO - Processed 116100000 reads so far
2011-05-20 08:53:41,232 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:122990048-143010048
2011-05-20 08:53:51,931 - INFO - Processed 116200000 reads so far
2011-05-20 08:54:03,613 - INFO - Processed 116300000 reads so far
2011-05-20 08:54:15,095 - INFO - Processed 116400000 reads so far
2011-05-20 08:54:25,843 - INFO - Processed 116500000 reads so far
2011-05-20 08:54:37,408 - INFO - Processed 116600000 reads so far
2011-05-20 08:54:49,287 - INFO - Processed 116700000 reads so far
2011-05-20 08:55:01,909 - INFO - Processed 116800000 reads so far
2011-05-20 08:55:13,487 - INFO - Processed 116900000 reads so far
2011-05-20 08:55:23,983 - INFO - Processed 117000000 reads so far
2011-05-20 08:55:35,443 - INFO - Processed 117100000 reads so far
2011-05-20 08:55:42,482 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:142990056-163010056
2011-05-20 08:55:44,306 - INFO - Processed 117200000 reads so far
2011-05-20 08:55:53,143 - INFO - Processed 117300000 reads so far
2011-05-20 08:56:03,020 - INFO - Processed 117400000 reads so far
2011-05-20 08:56:14,262 - INFO - Processed 117500000 reads so far
2011-05-20 08:56:17,498 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:2990012-23010012
2011-05-20 08:56:24,017 - INFO - Processed 117600000 reads so far
2011-05-20 08:56:33,691 - INFO - Processed 117700000 reads so far
2011-05-20 08:56:43,571 - INFO - Processed 117800000 reads so far
2011-05-20 08:56:52,612 - INFO - Processed 117900000 reads so far
2011-05-20 08:57:01,091 - INFO - Processed 118000000 reads so far
2011-05-20 08:57:11,216 - INFO - Processed 118100000 reads so far
2011-05-20 08:57:21,716 - INFO - Processed 118200000 reads so far
2011-05-20 08:57:32,319 - INFO - Processed 118300000 reads so far
2011-05-20 08:57:39,246 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:22990130-43010130
2011-05-20 08:57:44,302 - INFO - Processed 118400000 reads so far
2011-05-20 08:57:54,309 - INFO - Processed 118500000 reads so far
2011-05-20 08:58:03,415 - INFO - Processed 118600000 reads so far
2011-05-20 08:58:13,171 - INFO - Processed 118700000 reads so far
2011-05-20 08:58:24,701 - INFO - Processed 118800000 reads so far
2011-05-20 08:58:35,844 - INFO - Processed 118900000 reads so far
2011-05-20 08:58:48,523 - INFO - Processed 119000000 reads so far
2011-05-20 08:58:59,756 - INFO - Processed 119100000 reads so far
2011-05-20 08:59:08,565 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:46346333-66366333
2011-05-20 08:59:10,368 - INFO - Processed 119200000 reads so far
2011-05-20 08:59:21,303 - INFO - Processed 119300000 reads so far
2011-05-20 08:59:33,246 - INFO - Processed 119400000 reads so far
2011-05-20 08:59:44,859 - INFO - Processed 119500000 reads so far
2011-05-20 08:59:55,187 - INFO - Processed 119600000 reads so far
2011-05-20 09:00:07,785 - INFO - Processed 119700000 reads so far
2011-05-20 09:00:19,376 - INFO - Processed 119800000 reads so far
2011-05-20 09:00:29,780 - INFO - Processed 119900000 reads so far
2011-05-20 09:00:36,619 - INFO - Processed 120000000 reads so far
2011-05-20 09:00:44,874 - INFO - Processed 120100000 reads so far
2011-05-20 09:00:56,122 - INFO - Processed 120200000 reads so far
2011-05-20 09:01:02,874 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:66346350-86366350
2011-05-20 09:01:06,420 - INFO - Processed 120300000 reads so far
2011-05-20 09:01:18,034 - INFO - Processed 120400000 reads so far
2011-05-20 09:01:28,578 - INFO - Processed 120500000 reads so far
2011-05-20 09:01:40,667 - INFO - Processed 120600000 reads so far
2011-05-20 09:01:51,937 - INFO - Processed 120700000 reads so far
2011-05-20 09:02:02,381 - INFO - Processed 120800000 reads so far
2011-05-20 09:02:15,288 - INFO - Processed 120900000 reads so far
2011-05-20 09:02:26,359 - INFO - Processed 121000000 reads so far
2011-05-20 09:02:37,555 - INFO - Processed 121100000 reads so far
2011-05-20 09:02:48,908 - INFO - Processed 121200000 reads so far
2011-05-20 09:03:00,042 - INFO - Processed 121300000 reads so far
2011-05-20 09:03:05,722 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:86346354-106366354
2011-05-20 09:03:10,787 - INFO - Processed 121400000 reads so far
2011-05-20 09:03:23,663 - INFO - Processed 121500000 reads so far
2011-05-20 09:03:34,361 - INFO - Processed 121600000 reads so far
2011-05-20 09:03:45,092 - INFO - Processed 121700000 reads so far
2011-05-20 09:04:24,865 - INFO - Processed 121800000 reads so far
2011-05-20 09:04:33,337 - INFO - Processed 121900000 reads so far
2011-05-20 09:04:43,395 - INFO - Processed 122000000 reads so far
2011-05-20 09:04:51,889 - INFO - Processed 122100000 reads so far
2011-05-20 09:05:00,312 - INFO - Processed 122200000 reads so far
2011-05-20 09:05:09,060 - INFO - Processed 122300000 reads so far
2011-05-20 09:05:20,930 - INFO - Processed 122400000 reads so far
2011-05-20 09:05:21,484 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:106346372-126366372
2011-05-20 09:05:29,763 - INFO - Processed 122500000 reads so far
2011-05-20 09:05:38,943 - INFO - Processed 122600000 reads so far
2011-05-20 09:05:48,714 - INFO - Processed 122700000 reads so far
2011-05-20 09:05:58,947 - INFO - Processed 122800000 reads so far
2011-05-20 09:06:09,019 - INFO - Processed 122900000 reads so far
2011-05-20 09:06:18,339 - INFO - Processed 123000000 reads so far
2011-05-20 09:06:30,323 - INFO - Processed 123100000 reads so far
2011-05-20 09:06:43,187 - INFO - Processed 123200000 reads so far
2011-05-20 09:06:54,002 - INFO - Processed 123300000 reads so far
2011-05-20 09:07:05,364 - INFO - Processed 123400000 reads so far
2011-05-20 09:07:10,592 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:126346390-146366390
2011-05-20 09:07:14,299 - INFO - Processed 123500000 reads so far
2011-05-20 09:07:22,051 - INFO - Processed 123600000 reads so far
2011-05-20 09:07:33,057 - INFO - Processed 123700000 reads so far
2011-05-20 09:07:42,272 - INFO - Processed 123800000 reads so far
2011-05-20 09:07:51,354 - INFO - Processed 123900000 reads so far
2011-05-20 09:08:00,968 - INFO - Processed 124000000 reads so far
2011-05-20 09:08:11,424 - INFO - Processed 124100000 reads so far
2011-05-20 09:08:19,932 - INFO - Processed 124200000 reads so far
2011-05-20 09:08:28,538 - INFO - Processed 124300000 reads so far
2011-05-20 09:08:37,654 - INFO - Processed 124400000 reads so far
2011-05-20 09:08:47,486 - INFO - Processed 124500000 reads so far
2011-05-20 09:08:50,780 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:146346406-166366406
2011-05-20 09:08:58,940 - INFO - Processed 124600000 reads so far
2011-05-20 09:09:09,960 - INFO - Processed 124700000 reads so far
2011-05-20 09:09:23,901 - INFO - Processed 124800000 reads so far
2011-05-20 09:09:32,323 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7_random:0-20010046
2011-05-20 09:09:33,554 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:2990000-23010000
2011-05-20 09:09:38,629 - INFO - Processed 124900000 reads so far
2011-05-20 09:09:51,405 - INFO - Processed 125000000 reads so far
2011-05-20 09:10:02,865 - INFO - Processed 125100000 reads so far
2011-05-20 09:10:15,200 - INFO - Processed 125200000 reads so far
2011-05-20 09:10:25,831 - INFO - Processed 125300000 reads so far
2011-05-20 09:10:36,797 - INFO - Processed 125400000 reads so far
2011-05-20 09:10:48,302 - INFO - Processed 125500000 reads so far
2011-05-20 09:11:00,997 - INFO - Processed 125600000 reads so far
2011-05-20 09:11:10,918 - INFO - Processed 125700000 reads so far
2011-05-20 09:11:20,330 - INFO - Processed 125800000 reads so far
2011-05-20 09:11:28,076 - INFO - Processed 125900000 reads so far
2011-05-20 09:11:31,899 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:22990087-43010087
2011-05-20 09:11:36,923 - INFO - Processed 126000000 reads so far
2011-05-20 09:11:46,408 - INFO - Processed 126100000 reads so far
2011-05-20 09:11:56,025 - INFO - Processed 126200000 reads so far
2011-05-20 09:12:03,396 - INFO - Processed 126300000 reads so far
2011-05-20 09:12:11,912 - INFO - Processed 126400000 reads so far
2011-05-20 09:12:19,872 - INFO - Processed 126500000 reads so far
2011-05-20 09:12:29,018 - INFO - Processed 126600000 reads so far
2011-05-20 09:12:40,677 - INFO - Processed 126700000 reads so far
2011-05-20 09:12:52,427 - INFO - Processed 126800000 reads so far
2011-05-20 09:13:01,732 - INFO - Processed 126900000 reads so far
2011-05-20 09:13:09,384 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:42990089-63010089
2011-05-20 09:13:10,621 - INFO - Processed 127000000 reads so far
2011-05-20 09:13:20,334 - INFO - Processed 127100000 reads so far
2011-05-20 09:13:29,431 - INFO - Processed 127200000 reads so far
2011-05-20 09:13:37,313 - INFO - Processed 127300000 reads so far
2011-05-20 09:13:48,079 - INFO - Processed 127400000 reads so far
2011-05-20 09:13:58,885 - INFO - Processed 127500000 reads so far
2011-05-20 09:14:09,979 - INFO - Processed 127600000 reads so far
2011-05-20 09:14:18,951 - INFO - Processed 127700000 reads so far
2011-05-20 09:14:28,640 - INFO - Processed 127800000 reads so far
2011-05-20 09:14:37,719 - INFO - Processed 127900000 reads so far
2011-05-20 09:14:40,351 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:62990117-83010117
2011-05-20 09:14:48,449 - INFO - Processed 128000000 reads so far
2011-05-20 09:14:57,725 - INFO - Processed 128100000 reads so far
2011-05-20 09:15:07,934 - INFO - Processed 128200000 reads so far
2011-05-20 09:15:18,811 - INFO - Processed 128300000 reads so far
2011-05-20 09:15:32,081 - INFO - Processed 128400000 reads so far
2011-05-20 09:15:43,849 - INFO - Processed 128500000 reads so far
2011-05-20 09:15:55,742 - INFO - Processed 128600000 reads so far
2011-05-20 09:16:06,671 - INFO - Processed 128700000 reads so far
2011-05-20 09:16:17,822 - INFO - Processed 128800000 reads so far
2011-05-20 09:16:33,821 - INFO - Processed 128900000 reads so far
2011-05-20 09:16:42,634 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:82990150-103010150
2011-05-20 09:16:44,262 - INFO - Processed 129000000 reads so far
2011-05-20 09:16:55,769 - INFO - Processed 129100000 reads so far
2011-05-20 09:17:05,969 - INFO - Processed 129200000 reads so far
2011-05-20 09:17:16,268 - INFO - Processed 129300000 reads so far
2011-05-20 09:17:26,167 - INFO - Processed 129400000 reads so far
2011-05-20 09:17:36,132 - INFO - Processed 129500000 reads so far
2011-05-20 09:17:47,042 - INFO - Processed 129600000 reads so far
2011-05-20 09:17:56,544 - INFO - Processed 129700000 reads so far
2011-05-20 09:18:06,871 - INFO - Processed 129800000 reads so far
2011-05-20 09:18:19,001 - INFO - Processed 129900000 reads so far
2011-05-20 09:18:29,407 - INFO - Processed 130000000 reads so far
2011-05-20 09:18:31,993 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:102990201-123010201
2011-05-20 09:18:39,329 - INFO - Processed 130100000 reads so far
2011-05-20 09:18:51,999 - INFO - Processed 130200000 reads so far
2011-05-20 09:19:03,103 - INFO - Processed 130300000 reads so far
2011-05-20 09:19:13,672 - INFO - Processed 130400000 reads so far
2011-05-20 09:19:23,467 - INFO - Processed 130500000 reads so far
2011-05-20 09:19:33,882 - INFO - Processed 130600000 reads so far
2011-05-20 09:19:43,338 - INFO - Processed 130700000 reads so far
2011-05-20 09:19:52,020 - INFO - Processed 130800000 reads so far
2011-05-20 09:20:03,352 - INFO - Processed 130900000 reads so far
2011-05-20 09:20:12,468 - INFO - Processed 131000000 reads so far
2011-05-20 09:20:23,655 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:122990207-143010207
2011-05-20 09:20:26,558 - INFO - Processed 131100000 reads so far
2011-05-20 09:20:37,911 - INFO - Processed 131200000 reads so far
2011-05-20 09:20:48,024 - INFO - Processed 131300000 reads so far
2011-05-20 09:20:59,992 - INFO - Processed 131400000 reads so far
2011-05-20 09:21:11,598 - INFO - Processed 131500000 reads so far
2011-05-20 09:21:15,081 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8_random:0-20010001
2011-05-20 09:21:20,542 - INFO - Processed 131600000 reads so far
2011-05-20 09:21:23,986 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:2989934-23009934
2011-05-20 09:21:28,271 - INFO - Processed 131700000 reads so far
2011-05-20 09:21:36,337 - INFO - Processed 131800000 reads so far
2011-05-20 09:21:43,669 - INFO - Processed 131900000 reads so far
2011-05-20 09:21:51,946 - INFO - Processed 132000000 reads so far
2011-05-20 09:21:59,738 - INFO - Processed 132100000 reads so far
2011-05-20 09:22:07,202 - INFO - Processed 132200000 reads so far
2011-05-20 09:22:17,318 - INFO - Processed 132300000 reads so far
2011-05-20 09:22:26,200 - INFO - Processed 132400000 reads so far
2011-05-20 09:22:33,958 - INFO - Processed 132500000 reads so far
2011-05-20 09:22:42,079 - INFO - Processed 132600000 reads so far
2011-05-20 09:22:50,585 - INFO - Processed 132700000 reads so far
2011-05-20 09:22:58,821 - INFO - Processed 132800000 reads so far
2011-05-20 09:23:06,665 - INFO - Processed 132900000 reads so far
2011-05-20 09:23:14,143 - INFO - Processed 133000000 reads so far
2011-05-20 09:23:23,515 - INFO - Processed 133100000 reads so far
2011-05-20 09:23:31,846 - INFO - Processed 133200000 reads so far
2011-05-20 09:23:40,536 - INFO - Processed 133300000 reads so far
2011-05-20 09:23:48,655 - INFO - Processed 133400000 reads so far
2011-05-20 09:23:55,337 - INFO - Processed 133500000 reads so far
2011-05-20 09:24:04,512 - INFO - Processed 133600000 reads so far
2011-05-20 09:24:13,326 - INFO - Processed 133700000 reads so far
2011-05-20 09:24:21,271 - INFO - Processed 133800000 reads so far
2011-05-20 09:24:28,573 - INFO - Processed 133900000 reads so far
2011-05-20 09:24:36,937 - INFO - Processed 134000000 reads so far
2011-05-20 09:24:45,607 - INFO - Processed 134100000 reads so far
2011-05-20 09:24:53,551 - INFO - Processed 134200000 reads so far
2011-05-20 09:25:01,645 - INFO - Processed 134300000 reads so far
2011-05-20 09:25:09,359 - INFO - Processed 134400000 reads so far
2011-05-20 09:25:20,338 - INFO - Processed 134500000 reads so far
2011-05-20 09:25:27,904 - INFO - Processed 134600000 reads so far
2011-05-20 09:25:35,903 - INFO - Processed 134700000 reads so far
2011-05-20 09:25:44,068 - INFO - Processed 134800000 reads so far
2011-05-20 09:25:53,090 - INFO - Processed 134900000 reads so far
2011-05-20 09:26:03,145 - INFO - Processed 135000000 reads so far
2011-05-20 09:26:09,892 - INFO - Processed 135100000 reads so far
2011-05-20 09:26:16,691 - INFO - Processed 135200000 reads so far
2011-05-20 09:26:23,780 - INFO - Processed 135300000 reads so far
2011-05-20 09:26:32,345 - INFO - Processed 135400000 reads so far
2011-05-20 09:26:42,125 - INFO - Processed 135500000 reads so far
2011-05-20 09:26:49,812 - INFO - Processed 135600000 reads so far
2011-05-20 09:26:59,961 - INFO - Processed 135700000 reads so far
2011-05-20 09:27:31,996 - INFO - Processed 135800000 reads so far
2011-05-20 09:27:48,210 - INFO - Processed 135900000 reads so far
2011-05-20 09:27:58,378 - INFO - Processed 136000000 reads so far
2011-05-20 09:28:04,763 - INFO - Processed 136100000 reads so far
2011-05-20 09:28:12,772 - INFO - Processed 136200000 reads so far
2011-05-20 09:28:20,937 - INFO - Processed 136300000 reads so far
2011-05-20 09:28:29,493 - INFO - Processed 136400000 reads so far
2011-05-20 09:28:37,428 - INFO - Processed 136500000 reads so far
2011-05-20 09:28:45,233 - INFO - Processed 136600000 reads so far
2011-05-20 09:28:55,153 - INFO - Processed 136700000 reads so far
2011-05-20 09:29:05,159 - INFO - Processed 136800000 reads so far
2011-05-20 09:29:15,860 - INFO - Processed 136900000 reads so far
2011-05-20 09:29:24,051 - INFO - Processed 137000000 reads so far
2011-05-20 09:29:31,527 - INFO - Processed 137100000 reads so far
2011-05-20 09:29:40,355 - INFO - Processed 137200000 reads so far
2011-05-20 09:29:48,771 - INFO - Processed 137300000 reads so far
2011-05-20 09:29:55,668 - INFO - Processed 137400000 reads so far
2011-05-20 09:30:03,738 - INFO - Processed 137500000 reads so far
2011-05-20 09:30:10,459 - INFO - Processed 137600000 reads so far
2011-05-20 09:30:17,374 - INFO - Processed 137700000 reads so far
2011-05-20 09:30:26,786 - INFO - Processed 137800000 reads so far
2011-05-20 09:30:35,124 - INFO - Processed 137900000 reads so far
2011-05-20 09:30:44,868 - INFO - Processed 138000000 reads so far
2011-05-20 09:30:52,802 - INFO - Processed 138100000 reads so far
2011-05-20 09:31:01,721 - INFO - Processed 138200000 reads so far
2011-05-20 09:31:10,119 - INFO - Processed 138300000 reads so far
2011-05-20 09:31:16,912 - INFO - Processed 138400000 reads so far
2011-05-20 09:31:26,042 - INFO - Processed 138500000 reads so far
2011-05-20 09:31:38,794 - INFO - Processed 138600000 reads so far
2011-05-20 09:31:49,952 - INFO - Processed 138700000 reads so far
2011-05-20 09:32:00,829 - INFO - Processed 138800000 reads so far
2011-05-20 09:32:12,399 - INFO - Processed 138900000 reads so far
2011-05-20 09:32:24,858 - INFO - Processed 139000000 reads so far
2011-05-20 09:32:34,372 - INFO - Processed 139100000 reads so far
2011-05-20 09:32:43,365 - INFO - Processed 139200000 reads so far
2011-05-20 09:32:52,947 - INFO - Processed 139300000 reads so far
2011-05-20 09:33:03,078 - INFO - Processed 139400000 reads so far
2011-05-20 09:33:14,364 - INFO - Processed 139500000 reads so far
2011-05-20 09:33:24,310 - INFO - Processed 139600000 reads so far
2011-05-20 09:33:31,708 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:22989949-43009949
2011-05-20 09:33:36,050 - INFO - Processed 139700000 reads so far
2011-05-20 09:33:48,542 - INFO - Processed 139800000 reads so far
2011-05-20 09:34:01,496 - INFO - Processed 139900000 reads so far
2011-05-20 09:34:12,104 - INFO - Processed 140000000 reads so far
2011-05-20 09:34:21,491 - INFO - Processed 140100000 reads so far
2011-05-20 09:34:33,232 - INFO - Processed 140200000 reads so far
2011-05-20 09:34:42,984 - INFO - Processed 140300000 reads so far
2011-05-20 09:34:51,779 - INFO - Processed 140400000 reads so far
2011-05-20 09:35:00,139 - INFO - Processed 140500000 reads so far
2011-05-20 09:35:09,803 - INFO - Processed 140600000 reads so far
2011-05-20 09:35:19,419 - INFO - Processed 140700000 reads so far
2011-05-20 09:35:28,431 - INFO - Processed 140800000 reads so far
2011-05-20 09:35:34,510 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:42989965-63009965
2011-05-20 09:35:38,842 - INFO - Processed 140900000 reads so far
2011-05-20 09:35:52,684 - INFO - Processed 141000000 reads so far
2011-05-20 09:36:02,935 - INFO - Processed 141100000 reads so far
2011-05-20 09:36:11,521 - INFO - Processed 141200000 reads so far
2011-05-20 09:36:20,088 - INFO - Processed 141300000 reads so far
2011-05-20 09:36:32,035 - INFO - Processed 141400000 reads so far
2011-05-20 09:36:41,410 - INFO - Processed 141500000 reads so far
2011-05-20 09:36:50,164 - INFO - Processed 141600000 reads so far
2011-05-20 09:37:01,520 - INFO - Processed 141700000 reads so far
2011-05-20 09:37:12,753 - INFO - Processed 141800000 reads so far
2011-05-20 09:37:24,093 - INFO - Processed 141900000 reads so far
2011-05-20 09:37:28,050 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:62989999-83009999
2011-05-20 09:37:38,364 - INFO - Processed 142000000 reads so far
2011-05-20 09:37:49,357 - INFO - Processed 142100000 reads so far
2011-05-20 09:38:00,848 - INFO - Processed 142200000 reads so far
2011-05-20 09:38:10,250 - INFO - Processed 142300000 reads so far
2011-05-20 09:38:20,403 - INFO - Processed 142400000 reads so far
2011-05-20 09:38:29,918 - INFO - Processed 142500000 reads so far
2011-05-20 09:38:38,947 - INFO - Processed 142600000 reads so far
2011-05-20 09:38:48,784 - INFO - Processed 142700000 reads so far
2011-05-20 09:38:59,018 - INFO - Processed 142800000 reads so far
2011-05-20 09:39:13,539 - INFO - Processed 142900000 reads so far
2011-05-20 09:39:21,678 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:82990020-103010020
2011-05-20 09:39:24,703 - INFO - Processed 143000000 reads so far
2011-05-20 09:39:35,073 - INFO - Processed 143100000 reads so far
2011-05-20 09:39:45,363 - INFO - Processed 143200000 reads so far
2011-05-20 09:39:55,270 - INFO - Processed 143300000 reads so far
2011-05-20 09:40:04,176 - INFO - Processed 143400000 reads so far
2011-05-20 09:40:12,050 - INFO - Processed 143500000 reads so far
2011-05-20 09:40:20,872 - INFO - Processed 143600000 reads so far
2011-05-20 09:40:30,632 - INFO - Processed 143700000 reads so far
2011-05-20 09:40:39,671 - INFO - Processed 143800000 reads so far
2011-05-20 09:40:51,246 - INFO - Processed 143900000 reads so far
2011-05-20 09:41:00,891 - INFO - Processed 144000000 reads so far
2011-05-20 09:41:04,048 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:102990029-123010029
2011-05-20 09:41:10,686 - INFO - Processed 144100000 reads so far
2011-05-20 09:41:22,420 - INFO - Processed 144200000 reads so far
2011-05-20 09:41:32,310 - INFO - Processed 144300000 reads so far
2011-05-20 09:41:40,576 - INFO - Processed 144400000 reads so far
2011-05-20 09:41:53,030 - INFO - Processed 144500000 reads so far
2011-05-20 09:42:02,785 - INFO - Processed 144600000 reads so far
2011-05-20 09:42:12,206 - INFO - Processed 144700000 reads so far
2011-05-20 09:42:20,218 - INFO - Processed 144800000 reads so far
2011-05-20 09:42:30,600 - INFO - Processed 144900000 reads so far
2011-05-20 09:42:40,665 - INFO - Processed 145000000 reads so far
2011-05-20 09:42:49,668 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:122990036-143010036
2011-05-20 09:42:50,917 - INFO - Processed 145100000 reads so far
2011-05-20 09:42:56,463 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9_random:0-20010043
2011-05-20 09:42:59,523 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrM:0-20010000
2011-05-20 09:43:01,098 - INFO - Processed 145200000 reads so far
2011-05-20 09:43:04,241 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrUn_random:0-20010000
2011-05-20 09:43:09,075 - INFO - Processed 145300000 reads so far
2011-05-20 09:43:17,303 - INFO - Processed 145400000 reads so far
2011-05-20 09:43:28,515 - INFO - Processed 145500000 reads so far
2011-05-20 09:43:35,361 - INFO - Processed 145600000 reads so far
2011-05-20 09:43:41,305 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:2990259-23010259
2011-05-20 09:43:42,341 - INFO - Processed 145700000 reads so far
2011-05-20 09:43:52,258 - INFO - Processed 145800000 reads so far
2011-05-20 09:44:02,585 - INFO - Processed 145900000 reads so far
2011-05-20 09:44:11,583 - INFO - Processed 146000000 reads so far
2011-05-20 09:44:22,437 - INFO - Processed 146100000 reads so far
2011-05-20 09:44:32,458 - INFO - Processed 146200000 reads so far
2011-05-20 09:44:41,629 - INFO - Processed 146300000 reads so far
2011-05-20 09:44:47,751 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:22990280-43010280
2011-05-20 09:44:52,015 - INFO - Processed 146400000 reads so far
2011-05-20 09:45:01,337 - INFO - Processed 146500000 reads so far
2011-05-20 09:45:11,020 - INFO - Processed 146600000 reads so far
2011-05-20 09:45:21,764 - INFO - Processed 146700000 reads so far
2011-05-20 09:45:32,522 - INFO - Processed 146800000 reads so far
2011-05-20 09:45:55,884 - INFO - Processed 146900000 reads so far
2011-05-20 09:46:05,288 - INFO - Processed 147000000 reads so far
2011-05-20 09:46:06,528 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:42990451-63010451
2011-05-20 09:46:15,241 - INFO - Processed 147100000 reads so far
2011-05-20 09:46:25,100 - INFO - Processed 147200000 reads so far
2011-05-20 09:46:35,594 - INFO - Processed 147300000 reads so far
2011-05-20 09:46:46,656 - INFO - Processed 147400000 reads so far
2011-05-20 09:46:57,695 - INFO - Processed 147500000 reads so far
2011-05-20 09:47:04,407 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:62990454-83010454
2011-05-20 09:47:07,562 - INFO - Processed 147600000 reads so far
2011-05-20 09:47:17,052 - INFO - Processed 147700000 reads so far
2011-05-20 09:47:29,870 - INFO - Processed 147800000 reads so far
2011-05-20 09:47:39,988 - INFO - Processed 147900000 reads so far
2011-05-20 09:47:50,650 - INFO - Processed 148000000 reads so far
2011-05-20 09:48:00,268 - INFO - Processed 148100000 reads so far
2011-05-20 09:48:02,735 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:82990499-103010499
2011-05-20 09:48:10,278 - INFO - Processed 148200000 reads so far
2011-05-20 09:48:20,790 - INFO - Processed 148300000 reads so far
2011-05-20 09:48:31,900 - INFO - Processed 148400000 reads so far
2011-05-20 09:48:40,117 - INFO - Processed 148500000 reads so far
2011-05-20 09:48:49,510 - INFO - Processed 148600000 reads so far
2011-05-20 09:48:57,308 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:102990577-123010577
2011-05-20 09:49:00,186 - INFO - Processed 148700000 reads so far
2011-05-20 09:49:10,493 - INFO - Processed 148800000 reads so far
2011-05-20 09:49:20,629 - INFO - Processed 148900000 reads so far
2011-05-20 09:49:31,031 - INFO - Processed 149000000 reads so far
2011-05-20 09:49:41,537 - INFO - Processed 149100000 reads so far
2011-05-20 09:49:52,048 - INFO - Processed 149200000 reads so far
2011-05-20 09:50:05,346 - INFO - Processed 149300000 reads so far
2011-05-20 09:50:09,276 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:122990588-143010588
2011-05-20 09:50:15,917 - INFO - Processed 149400000 reads so far
2011-05-20 09:50:25,854 - INFO - Processed 149500000 reads so far
2011-05-20 09:50:34,508 - INFO - Processed 149600000 reads so far
2011-05-20 09:50:44,880 - INFO - Processed 149700000 reads so far
2011-05-20 09:50:54,373 - INFO - Processed 149800000 reads so far
2011-05-20 09:51:02,040 - INFO - Processed 149900000 reads so far
2011-05-20 09:51:07,853 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:142990610-163010610
2011-05-20 09:51:12,931 - INFO - Processed 150000000 reads so far
2011-05-20 09:51:22,515 - INFO - Processed 150100000 reads so far
2011-05-20 09:51:31,241 - INFO - Processed 150200000 reads so far
2011-05-20 09:51:41,419 - INFO - Processed 150300000 reads so far
2011-05-20 09:51:50,426 - INFO - Processed 150400000 reads so far
2011-05-20 09:51:57,732 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:162990616-183010616
2011-05-20 09:51:59,775 - INFO - Processed 150500000 reads so far
2011-05-20 09:52:08,870 - INFO - Processed 150600000 reads so far
2011-05-20 09:52:13,599 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX_random:0-20010015
2011-05-20 09:52:17,430 - INFO - Processed 150700000 reads so far
2011-05-20 09:52:18,021 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrY:0-20010000
2011-05-20 09:52:26,527 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrY_random:0-20010060
2011-05-20 09:52:26,659 - INFO - Processed 150800000 reads so far
2011-05-20 09:52:35,537 - INFO - Processed 150900000 reads so far
2011-05-20 09:52:45,618 - INFO - Processed 151000000 reads so far
2011-05-20 09:52:53,415 - INFO - Processed 151100000 reads so far
2011-05-20 09:53:03,787 - INFO - Processed 151200000 reads so far
2011-05-20 09:53:11,913 - INFO - Processed 151300000 reads so far
2011-05-20 09:53:20,239 - INFO - Processed 151400000 reads so far
2011-05-20 09:53:27,434 - INFO - Processed 151500000 reads so far
2011-05-20 09:53:34,857 - INFO - Processed 151600000 reads so far
2011-05-20 09:53:37,061 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrY_random:19990068-40010068
2011-05-20 09:53:43,758 - INFO - Processed 151700000 reads so far
2011-05-20 09:53:53,320 - INFO - Processed 151800000 reads so far
2011-05-20 09:54:02,127 - INFO - Processed 151900000 reads so far
2011-05-20 09:54:11,084 - INFO - Processed 152000000 reads so far
2011-05-20 09:54:14,352 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrY_random:39990070-60010070
2011-05-20 09:54:21,677 - INFO - Processed 152100000 reads so far
2011-05-20 09:54:31,358 - INFO - Processed 152200000 reads so far
2011-05-20 09:54:40,712 - INFO - Processed 152300000 reads so far
2011-05-20 09:54:48,432 - INFO - Processed 152400000 reads so far
2011-05-20 09:54:55,922 - INFO - Processed 152500000 reads so far
2011-05-20 09:55:06,190 - INFO - Processed 152600000 reads so far
2011-05-20 09:55:11,083 - INFO - Processed 152700000 reads so far
2011-05-20 09:55:14,025 - INFO - Processed 152800000 reads so far
2011-05-20 09:55:17,241 - INFO - Processed 152900000 reads so far
2011-05-20 09:55:20,089 - INFO - Processed 153000000 reads so far
2011-05-20 09:55:23,821 - INFO - Processed 153100000 reads so far
2011-05-20 09:55:27,157 - INFO - Processed 153200000 reads so far
2011-05-20 09:55:30,459 - INFO - Processed 153300000 reads so far
2011-05-20 09:55:33,873 - INFO - Processed 153400000 reads so far
2011-05-20 09:55:37,139 - INFO - Processed 153500000 reads so far
2011-05-20 09:55:40,434 - INFO - Processed 153600000 reads so far
2011-05-20 09:55:43,932 - INFO - Processed 153700000 reads so far
2011-05-20 09:55:47,492 - INFO - Processed 153800000 reads so far
2011-05-20 09:55:50,379 - INFO - Processed 153900000 reads so far
2011-05-20 09:55:53,384 - INFO - Processed 154000000 reads so far
2011-05-20 09:55:56,432 - INFO - Processed 154100000 reads so far
2011-05-20 09:56:00,057 - INFO - Processed 154200000 reads so far
2011-05-20 09:56:02,849 - INFO - Processed 154300000 reads so far
2011-05-20 09:56:07,269 - INFO - Processed 154400000 reads so far
2011-05-20 09:56:10,885 - INFO - Processed 154500000 reads so far
2011-05-20 09:56:14,911 - INFO - Processed 154600000 reads so far
2011-05-20 09:56:19,489 - INFO - Processed 154700000 reads so far
2011-05-20 09:56:22,873 - INFO - Processed 154800000 reads so far
2011-05-20 09:56:25,549 - INFO - Processed 154900000 reads so far
2011-05-20 09:56:27,703 - INFO - Finished loading data. Outputting QC metrics
2011-05-20 09:56:46,651 - INFO - Finished outputting QC metrics
2011-05-20 09:56:46,753 - INFO - Finished generating QC metrics