2011-05-20 01:44:39,854 - INFO - Generating QC metrics for BAM File ['WTCHG_12346.bam']
2011-05-20 01:44:39,854 - INFO - Output will go to WTCHG_12346.qc.txt.tmp
2011-05-20 01:44:39,854 - INFO - Reading GC Map from file /data/Genomes/gcMap/Mouse37.gcMap.gz
2011-05-20 01:47:19,738 - INFO - Finished reading GC Map
2011-05-20 01:47:19,738 - INFO - Reading CDS from exon definition file /data/Genomes/annotation/Mouse37.refGene.txt.gz
2011-05-20 01:47:22,225 - INFO - Read 382138 exons (33804740 nucleotides) for 32 chromosomes
2011-05-20 01:47:22,226 - INFO - Computing coverage cut-off
2011-05-20 01:47:22,226 - INFO - Retrieving BAM file coverage info from samtools pileup
2011-05-20 01:47:26,846 - INFO - Processed 1000000 pile-up sites
2011-05-20 01:47:30,719 - INFO - Processed 2000000 pile-up sites
2011-05-20 01:47:34,565 - INFO - Processed 3000000 pile-up sites
2011-05-20 01:47:38,435 - INFO - Processed 4000000 pile-up sites
2011-05-20 01:47:42,246 - INFO - Processed 5000000 pile-up sites
2011-05-20 01:47:46,046 - INFO - Processed 6000000 pile-up sites
2011-05-20 01:47:49,929 - INFO - Processed 7000000 pile-up sites
2011-05-20 01:47:53,801 - INFO - Processed 8000000 pile-up sites
2011-05-20 01:47:57,901 - INFO - Processed 9000000 pile-up sites
2011-05-20 01:48:03,760 - INFO - Processed 10000000 pile-up sites
2011-05-20 01:48:08,213 - INFO - Processed 11000000 pile-up sites
2011-05-20 01:48:13,308 - INFO - Processed 12000000 pile-up sites
2011-05-20 01:48:15,798 - INFO - Processed 13000000 pile-up sites
2011-05-20 01:48:18,310 - INFO - Processed 14000000 pile-up sites
2011-05-20 01:48:20,827 - INFO - Processed 15000000 pile-up sites
2011-05-20 01:48:23,357 - INFO - Processed 16000000 pile-up sites
2011-05-20 01:48:25,880 - INFO - Processed 17000000 pile-up sites
2011-05-20 01:48:28,402 - INFO - Processed 18000000 pile-up sites
2011-05-20 01:48:31,072 - INFO - Processed 19000000 pile-up sites
2011-05-20 01:48:34,666 - INFO - Processed 20000000 pile-up sites
2011-05-20 01:48:40,169 - INFO - Processed 21000000 pile-up sites
2011-05-20 01:48:45,010 - INFO - Processed 22000000 pile-up sites
2011-05-20 01:48:47,525 - INFO - Processed 23000000 pile-up sites
2011-05-20 01:48:50,812 - INFO - Processed 24000000 pile-up sites
2011-05-20 01:48:54,385 - INFO - Processed 25000000 pile-up sites
2011-05-20 01:48:58,864 - INFO - Processed 26000000 pile-up sites
2011-05-20 01:49:03,352 - INFO - Processed 27000000 pile-up sites
2011-05-20 01:49:08,135 - INFO - Processed 28000000 pile-up sites
2011-05-20 01:49:12,697 - INFO - Processed 29000000 pile-up sites
2011-05-20 01:49:17,228 - INFO - Processed 30000000 pile-up sites
2011-05-20 01:49:17,814 - INFO - Finished processing pile-up on 30124424 sites (200000004 nucleotides)
2011-05-20 01:49:17,814 - INFO - Coverage cut-off value is 32
2011-05-20 01:49:17,814 - INFO - Loading data into QC data manager
2011-05-20 01:49:17,994 - WARNING - Found RG tag 'SM' (value: 310) duplicated in CO field (value: 038/11) -- ignoring CO value
2011-05-20 01:49:17,995 - WARNING - Found RG tag 'ID' (value: WTCHG_12346) duplicated in CO field (value: 038/11) -- ignoring CO value
2011-05-20 01:49:17,995 - WARNING - Found RG tag 'SM' (value: 310) duplicated in CO field (value: 038/11) -- ignoring CO value
2011-05-20 01:49:17,995 - WARNING - Found RG tag 'ID' (value: WTCHG_12346) duplicated in CO field (value: 038/11) -- ignoring CO value
2011-05-20 01:49:17,995 - WARNING - Found RG tag 'SM' (value: 310) duplicated in CO field (value: 038/11) -- ignoring CO value
2011-05-20 01:49:17,995 - WARNING - Found RG tag 'ID' (value: WTCHG_12346) duplicated in CO field (value: 038/11) -- ignoring CO value
2011-05-20 01:49:17,995 - WARNING - Found RG tag 'SM' (value: 310) duplicated in CO field (value: 038/11) -- ignoring CO value
2011-05-20 01:49:17,995 - WARNING - Found RG tag 'ID' (value: WTCHG_12346) duplicated in CO field (value: 038/11) -- ignoring CO value
2011-05-20 01:49:18,050 - WARNING - Found RG tag 'SM' (value: 310) duplicated in CO field (value: 038/11) -- ignoring CO value
2011-05-20 01:49:18,050 - WARNING - Found RG tag 'ID' (value: WTCHG_12346) duplicated in CO field (value: 038/11) -- ignoring CO value
2011-05-20 01:49:18,050 - WARNING - Found RG tag 'SM' (value: 310) duplicated in CO field (value: 038/11) -- ignoring CO value
2011-05-20 01:49:18,050 - WARNING - Found RG tag 'ID' (value: WTCHG_12346) duplicated in CO field (value: 038/11) -- ignoring CO value
2011-05-20 01:49:18,050 - WARNING - Found RG tag 'SM' (value: 310) duplicated in CO field (value: 038/11) -- ignoring CO value
2011-05-20 01:49:18,050 - WARNING - Found RG tag 'ID' (value: WTCHG_12346) duplicated in CO field (value: 038/11) -- ignoring CO value
2011-05-20 01:49:18,051 - WARNING - Found RG tag 'SM' (value: 310) duplicated in CO field (value: 038/11) -- ignoring CO value
2011-05-20 01:49:18,051 - WARNING - Found RG tag 'ID' (value: WTCHG_12346) duplicated in CO field (value: 038/11) -- ignoring CO value
2011-05-20 01:49:18,060 - INFO - Reading data from BAM file WTCHG_12346.bam. All reads in file will be read
2011-05-20 01:49:18,104 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:2989999-23009999
2011-05-20 01:49:28,522 - INFO - Processed 100000 reads so far
2011-05-20 01:49:37,279 - INFO - Processed 200000 reads so far
2011-05-20 01:49:45,083 - INFO - Processed 300000 reads so far
2011-05-20 01:49:52,757 - INFO - Processed 400000 reads so far
2011-05-20 01:50:00,770 - INFO - Processed 500000 reads so far
2011-05-20 01:50:09,112 - INFO - Processed 600000 reads so far
2011-05-20 01:50:17,109 - INFO - Processed 700000 reads so far
2011-05-20 01:50:24,689 - INFO - Processed 800000 reads so far
2011-05-20 01:50:32,716 - INFO - Processed 900000 reads so far
2011-05-20 01:50:41,258 - INFO - Processed 1000000 reads so far
2011-05-20 01:50:48,981 - INFO - Processed 1100000 reads so far
2011-05-20 01:50:59,067 - INFO - Processed 1200000 reads so far
2011-05-20 01:51:06,642 - INFO - Processed 1300000 reads so far
2011-05-20 01:51:07,634 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:22990029-43010029
2011-05-20 01:51:15,144 - INFO - Processed 1400000 reads so far
2011-05-20 01:51:25,255 - INFO - Processed 1500000 reads so far
2011-05-20 01:51:34,500 - INFO - Processed 1600000 reads so far
2011-05-20 01:51:42,584 - INFO - Processed 1700000 reads so far
2011-05-20 01:51:52,099 - INFO - Processed 1800000 reads so far
2011-05-20 01:52:02,516 - INFO - Processed 1900000 reads so far
2011-05-20 01:52:13,199 - INFO - Processed 2000000 reads so far
2011-05-20 01:52:24,148 - INFO - Processed 2100000 reads so far
2011-05-20 01:52:34,657 - INFO - Processed 2200000 reads so far
2011-05-20 01:52:43,828 - INFO - Processed 2300000 reads so far
2011-05-20 01:52:52,043 - INFO - Processed 2400000 reads so far
2011-05-20 01:53:01,633 - INFO - Processed 2500000 reads so far
2011-05-20 01:53:09,674 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:42990046-63010046
2011-05-20 01:53:12,063 - INFO - Processed 2600000 reads so far
2011-05-20 01:53:20,619 - INFO - Processed 2700000 reads so far
2011-05-20 01:53:30,530 - INFO - Processed 2800000 reads so far
2011-05-20 01:53:38,554 - INFO - Processed 2900000 reads so far
2011-05-20 01:53:46,660 - INFO - Processed 3000000 reads so far
2011-05-20 01:53:55,164 - INFO - Processed 3100000 reads so far
2011-05-20 01:54:03,536 - INFO - Processed 3200000 reads so far
2011-05-20 01:54:12,981 - INFO - Processed 3300000 reads so far
2011-05-20 01:54:21,442 - INFO - Processed 3400000 reads so far
2011-05-20 01:54:30,077 - INFO - Processed 3500000 reads so far
2011-05-20 01:54:38,132 - INFO - Processed 3600000 reads so far
2011-05-20 01:54:46,540 - INFO - Processed 3700000 reads so far
2011-05-20 01:54:57,679 - INFO - Processed 3800000 reads so far
2011-05-20 01:55:01,646 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:62990074-83010074
2011-05-20 01:55:06,181 - INFO - Processed 3900000 reads so far
2011-05-20 01:55:16,288 - INFO - Processed 4000000 reads so far
2011-05-20 01:55:27,853 - INFO - Processed 4100000 reads so far
2011-05-20 01:55:38,707 - INFO - Processed 4200000 reads so far
2011-05-20 01:55:49,556 - INFO - Processed 4300000 reads so far
2011-05-20 01:55:57,816 - INFO - Processed 4400000 reads so far
2011-05-20 01:56:07,313 - INFO - Processed 4500000 reads so far
2011-05-20 01:56:15,467 - INFO - Processed 4600000 reads so far
2011-05-20 01:56:25,290 - INFO - Processed 4700000 reads so far
2011-05-20 01:56:35,703 - INFO - Processed 4800000 reads so far
2011-05-20 01:56:43,710 - INFO - Processed 4900000 reads so far
2011-05-20 01:56:53,066 - INFO - Processed 5000000 reads so far
2011-05-20 01:57:02,813 - INFO - Processed 5100000 reads so far
2011-05-20 01:57:06,884 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:82990098-103010098
2011-05-20 01:57:12,957 - INFO - Processed 5200000 reads so far
2011-05-20 01:57:22,842 - INFO - Processed 5300000 reads so far
2011-05-20 01:57:33,751 - INFO - Processed 5400000 reads so far
2011-05-20 01:57:43,910 - INFO - Processed 5500000 reads so far
2011-05-20 01:57:53,114 - INFO - Processed 5600000 reads so far
2011-05-20 01:58:01,263 - INFO - Processed 5700000 reads so far
2011-05-20 01:58:12,471 - INFO - Processed 5800000 reads so far
2011-05-20 01:58:22,687 - INFO - Processed 5900000 reads so far
2011-05-20 01:58:31,956 - INFO - Processed 6000000 reads so far
2011-05-20 01:58:41,994 - INFO - Processed 6100000 reads so far
2011-05-20 01:58:50,813 - INFO - Processed 6200000 reads so far
2011-05-20 01:59:01,075 - INFO - Processed 6300000 reads so far
2011-05-20 01:59:09,586 - INFO - Processed 6400000 reads so far
2011-05-20 01:59:12,424 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:102990117-123010117
2011-05-20 01:59:19,533 - INFO - Processed 6500000 reads so far
2011-05-20 01:59:30,661 - INFO - Processed 6600000 reads so far
2011-05-20 01:59:40,787 - INFO - Processed 6700000 reads so far
2011-05-20 01:59:50,429 - INFO - Processed 6800000 reads so far
2011-05-20 02:00:03,581 - INFO - Processed 6900000 reads so far
2011-05-20 02:00:13,784 - INFO - Processed 7000000 reads so far
2011-05-20 02:00:22,370 - INFO - Processed 7100000 reads so far
2011-05-20 02:00:32,669 - INFO - Processed 7200000 reads so far
2011-05-20 02:00:41,873 - INFO - Processed 7300000 reads so far
2011-05-20 02:00:52,008 - INFO - Processed 7400000 reads so far
2011-05-20 02:01:02,158 - INFO - Processed 7500000 reads so far
2011-05-20 02:01:11,720 - INFO - Processed 7600000 reads so far
2011-05-20 02:01:19,484 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:122990132-143010132
2011-05-20 02:01:21,228 - INFO - Processed 7700000 reads so far
2011-05-20 02:01:34,490 - INFO - Processed 7800000 reads so far
2011-05-20 02:01:43,718 - INFO - Processed 7900000 reads so far
2011-05-20 02:01:54,183 - INFO - Processed 8000000 reads so far
2011-05-20 02:02:05,444 - INFO - Processed 8100000 reads so far
2011-05-20 02:02:07,371 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:2990002-23010002
2011-05-20 02:02:15,283 - INFO - Processed 8200000 reads so far
2011-05-20 02:02:25,249 - INFO - Processed 8300000 reads so far
2011-05-20 02:02:36,716 - INFO - Processed 8400000 reads so far
2011-05-20 02:02:49,333 - INFO - Processed 8500000 reads so far
2011-05-20 02:03:01,789 - INFO - Processed 8600000 reads so far
2011-05-20 02:03:12,220 - INFO - Processed 8700000 reads so far
2011-05-20 02:03:20,034 - INFO - Processed 8800000 reads so far
2011-05-20 02:03:28,794 - INFO - Processed 8900000 reads so far
2011-05-20 02:03:38,262 - INFO - Processed 9000000 reads so far
2011-05-20 02:03:49,066 - INFO - Processed 9100000 reads so far
2011-05-20 02:04:01,279 - INFO - Processed 9200000 reads so far
2011-05-20 02:04:12,155 - INFO - Processed 9300000 reads so far
2011-05-20 02:04:23,207 - INFO - Processed 9400000 reads so far
2011-05-20 02:04:34,425 - INFO - Processed 9500000 reads so far
2011-05-20 02:04:45,422 - INFO - Processed 9600000 reads so far
2011-05-20 02:04:48,036 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:22990024-43010024
2011-05-20 02:04:58,195 - INFO - Processed 9700000 reads so far
2011-05-20 02:05:09,528 - INFO - Processed 9800000 reads so far
2011-05-20 02:05:20,537 - INFO - Processed 9900000 reads so far
2011-05-20 02:05:31,808 - INFO - Processed 10000000 reads so far
2011-05-20 02:05:43,365 - INFO - Processed 10100000 reads so far
2011-05-20 02:05:54,553 - INFO - Processed 10200000 reads so far
2011-05-20 02:06:05,053 - INFO - Processed 10300000 reads so far
2011-05-20 02:06:15,551 - INFO - Processed 10400000 reads so far
2011-05-20 02:06:27,182 - INFO - Processed 10500000 reads so far
2011-05-20 02:06:37,714 - INFO - Processed 10600000 reads so far
2011-05-20 02:06:50,383 - INFO - Processed 10700000 reads so far
2011-05-20 02:07:00,260 - INFO - Processed 10800000 reads so far
2011-05-20 02:07:07,391 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:42990030-63010030
2011-05-20 02:07:08,760 - INFO - Processed 10900000 reads so far
2011-05-20 02:07:18,554 - INFO - Processed 11000000 reads so far
2011-05-20 02:07:28,271 - INFO - Processed 11100000 reads so far
2011-05-20 02:07:38,787 - INFO - Processed 11200000 reads so far
2011-05-20 02:07:49,189 - INFO - Processed 11300000 reads so far
2011-05-20 02:07:58,235 - INFO - Processed 11400000 reads so far
2011-05-20 02:08:08,675 - INFO - Processed 11500000 reads so far
2011-05-20 02:08:18,844 - INFO - Processed 11600000 reads so far
2011-05-20 02:08:28,688 - INFO - Processed 11700000 reads so far
2011-05-20 02:08:38,561 - INFO - Processed 11800000 reads so far
2011-05-20 02:08:49,297 - INFO - Processed 11900000 reads so far
2011-05-20 02:08:59,868 - INFO - Processed 12000000 reads so far
2011-05-20 02:09:09,691 - INFO - Processed 12100000 reads so far
2011-05-20 02:09:20,349 - INFO - Processed 12200000 reads so far
2011-05-20 02:09:21,919 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:62990052-83010052
2011-05-20 02:09:40,393 - INFO - Processed 12300000 reads so far
2011-05-20 02:10:12,658 - INFO - Processed 12400000 reads so far
2011-05-20 02:10:28,293 - INFO - Processed 12500000 reads so far
2011-05-20 02:10:47,744 - INFO - Processed 12600000 reads so far
2011-05-20 02:10:59,163 - INFO - Processed 12700000 reads so far
2011-05-20 02:11:10,560 - INFO - Processed 12800000 reads so far
2011-05-20 02:11:44,163 - INFO - Processed 12900000 reads so far
2011-05-20 02:12:00,972 - INFO - Processed 13000000 reads so far
2011-05-20 02:12:09,874 - INFO - Processed 13100000 reads so far
2011-05-20 02:12:19,499 - INFO - Processed 13200000 reads so far
2011-05-20 02:12:30,712 - INFO - Processed 13300000 reads so far
2011-05-20 02:12:39,730 - INFO - Processed 13400000 reads so far
2011-05-20 02:12:59,325 - INFO - Processed 13500000 reads so far
2011-05-20 02:13:02,917 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:82990072-103010072
2011-05-20 02:13:07,366 - INFO - Processed 13600000 reads so far
2011-05-20 02:13:35,831 - INFO - Processed 13700000 reads so far
2011-05-20 02:13:50,719 - INFO - Processed 13800000 reads so far
2011-05-20 02:14:07,321 - INFO - Processed 13900000 reads so far
2011-05-20 02:14:18,507 - INFO - Processed 14000000 reads so far
2011-05-20 02:14:30,765 - INFO - Processed 14100000 reads so far
2011-05-20 02:14:40,599 - INFO - Processed 14200000 reads so far
2011-05-20 02:14:58,489 - INFO - Processed 14300000 reads so far
2011-05-20 02:15:09,546 - INFO - Processed 14400000 reads so far
2011-05-20 02:15:41,321 - INFO - Processed 14500000 reads so far
2011-05-20 02:15:55,914 - INFO - Processed 14600000 reads so far
2011-05-20 02:16:07,978 - INFO - Processed 14700000 reads so far
2011-05-20 02:16:19,657 - INFO - Processed 14800000 reads so far
2011-05-20 02:16:19,756 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:102990077-123010077
2011-05-20 02:16:32,803 - INFO - Processed 14900000 reads so far
2011-05-20 02:16:42,236 - INFO - Processed 15000000 reads so far
2011-05-20 02:16:51,499 - INFO - Processed 15100000 reads so far
2011-05-20 02:17:00,682 - INFO - Processed 15200000 reads so far
2011-05-20 02:17:09,839 - INFO - Processed 15300000 reads so far
2011-05-20 02:17:17,812 - INFO - Processed 15400000 reads so far
2011-05-20 02:17:26,215 - INFO - Processed 15500000 reads so far
2011-05-20 02:17:33,943 - INFO - Processed 15600000 reads so far
2011-05-20 02:17:42,808 - INFO - Processed 15700000 reads so far
2011-05-20 02:17:52,532 - INFO - Processed 15800000 reads so far
2011-05-20 02:18:00,570 - INFO - Processed 15900000 reads so far
2011-05-20 02:18:09,392 - INFO - Processed 16000000 reads so far
2011-05-20 02:18:14,135 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:2990066-23010066
2011-05-20 02:18:18,027 - INFO - Processed 16100000 reads so far
2011-05-20 02:18:26,705 - INFO - Processed 16200000 reads so far
2011-05-20 02:18:35,979 - INFO - Processed 16300000 reads so far
2011-05-20 02:18:44,590 - INFO - Processed 16400000 reads so far
2011-05-20 02:18:53,237 - INFO - Processed 16500000 reads so far
2011-05-20 02:19:02,021 - INFO - Processed 16600000 reads so far
2011-05-20 02:19:11,534 - INFO - Processed 16700000 reads so far
2011-05-20 02:19:20,719 - INFO - Processed 16800000 reads so far
2011-05-20 02:19:33,503 - INFO - Processed 16900000 reads so far
2011-05-20 02:19:41,682 - INFO - Processed 17000000 reads so far
2011-05-20 02:19:49,331 - INFO - Processed 17100000 reads so far
2011-05-20 02:20:00,137 - INFO - Processed 17200000 reads so far
2011-05-20 02:20:09,569 - INFO - Processed 17300000 reads so far
2011-05-20 02:20:17,157 - INFO - Processed 17400000 reads so far
2011-05-20 02:20:25,049 - INFO - Processed 17500000 reads so far
2011-05-20 02:20:26,517 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:22990067-43010067
2011-05-20 02:20:34,960 - INFO - Processed 17600000 reads so far
2011-05-20 02:20:44,354 - INFO - Processed 17700000 reads so far
2011-05-20 02:20:53,396 - INFO - Processed 17800000 reads so far
2011-05-20 02:21:00,374 - INFO - Processed 17900000 reads so far
2011-05-20 02:21:12,629 - INFO - Processed 18000000 reads so far
2011-05-20 02:21:21,464 - INFO - Processed 18100000 reads so far
2011-05-20 02:21:29,598 - INFO - Processed 18200000 reads so far
2011-05-20 02:21:41,470 - INFO - Processed 18300000 reads so far
2011-05-20 02:21:54,122 - INFO - Processed 18400000 reads so far
2011-05-20 02:22:05,093 - INFO - Processed 18500000 reads so far
2011-05-20 02:22:15,701 - INFO - Processed 18600000 reads so far
2011-05-20 02:22:27,655 - INFO - Processed 18700000 reads so far
2011-05-20 02:22:31,471 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:42990147-63010147
2011-05-20 02:22:39,212 - INFO - Processed 18800000 reads so far
2011-05-20 02:22:49,898 - INFO - Processed 18900000 reads so far
2011-05-20 02:22:58,654 - INFO - Processed 19000000 reads so far
2011-05-20 02:23:09,240 - INFO - Processed 19100000 reads so far
2011-05-20 02:23:19,966 - INFO - Processed 19200000 reads so far
2011-05-20 02:23:30,856 - INFO - Processed 19300000 reads so far
2011-05-20 02:23:41,135 - INFO - Processed 19400000 reads so far
2011-05-20 02:23:52,201 - INFO - Processed 19500000 reads so far
2011-05-20 02:24:04,569 - INFO - Processed 19600000 reads so far
2011-05-20 02:24:14,514 - INFO - Processed 19700000 reads so far
2011-05-20 02:24:25,583 - INFO - Processed 19800000 reads so far
2011-05-20 02:24:36,303 - INFO - Processed 19900000 reads so far
2011-05-20 02:24:43,538 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:62990156-83010156
2011-05-20 02:24:47,416 - INFO - Processed 20000000 reads so far
2011-05-20 02:24:58,141 - INFO - Processed 20100000 reads so far
2011-05-20 02:25:08,821 - INFO - Processed 20200000 reads so far
2011-05-20 02:25:20,909 - INFO - Processed 20300000 reads so far
2011-05-20 02:25:31,385 - INFO - Processed 20400000 reads so far
2011-05-20 02:25:42,857 - INFO - Processed 20500000 reads so far
2011-05-20 02:25:54,244 - INFO - Processed 20600000 reads so far
2011-05-20 02:26:05,282 - INFO - Processed 20700000 reads so far
2011-05-20 02:26:17,064 - INFO - Processed 20800000 reads so far
2011-05-20 02:26:27,810 - INFO - Processed 20900000 reads so far
2011-05-20 02:26:36,770 - INFO - Processed 21000000 reads so far
2011-05-20 02:26:46,582 - INFO - Processed 21100000 reads so far
2011-05-20 02:26:57,697 - INFO - Processed 21200000 reads so far
2011-05-20 02:27:00,711 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:82990159-103010159
2011-05-20 02:27:06,187 - INFO - Processed 21300000 reads so far
2011-05-20 02:27:16,952 - INFO - Processed 21400000 reads so far
2011-05-20 02:27:27,965 - INFO - Processed 21500000 reads so far
2011-05-20 02:27:38,543 - INFO - Processed 21600000 reads so far
2011-05-20 02:27:49,470 - INFO - Processed 21700000 reads so far
2011-05-20 02:28:00,123 - INFO - Processed 21800000 reads so far
2011-05-20 02:28:10,385 - INFO - Processed 21900000 reads so far
2011-05-20 02:28:21,133 - INFO - Processed 22000000 reads so far
2011-05-20 02:28:30,545 - INFO - Processed 22100000 reads so far
2011-05-20 02:28:40,812 - INFO - Processed 22200000 reads so far
2011-05-20 02:28:52,441 - INFO - Processed 22300000 reads so far
2011-05-20 02:29:03,389 - INFO - Processed 22400000 reads so far
2011-05-20 02:29:13,606 - INFO - Processed 22500000 reads so far
2011-05-20 02:29:14,472 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:102990168-123010168
2011-05-20 02:29:25,122 - INFO - Processed 22600000 reads so far
2011-05-20 02:29:35,297 - INFO - Processed 22700000 reads so far
2011-05-20 02:29:46,122 - INFO - Processed 22800000 reads so far
2011-05-20 02:29:57,372 - INFO - Processed 22900000 reads so far
2011-05-20 02:30:08,053 - INFO - Processed 23000000 reads so far
2011-05-20 02:30:17,040 - INFO - Processed 23100000 reads so far
2011-05-20 02:30:27,892 - INFO - Processed 23200000 reads so far
2011-05-20 02:30:39,417 - INFO - Processed 23300000 reads so far
2011-05-20 02:30:50,007 - INFO - Processed 23400000 reads so far
2011-05-20 02:30:59,111 - INFO - Processed 23500000 reads so far
2011-05-20 02:31:12,662 - INFO - Processed 23600000 reads so far
2011-05-20 02:31:21,580 - INFO - Processed 23700000 reads so far
2011-05-20 02:31:28,729 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:2990070-23010070
2011-05-20 02:31:31,159 - INFO - Processed 23800000 reads so far
2011-05-20 02:31:39,374 - INFO - Processed 23900000 reads so far
2011-05-20 02:31:48,758 - INFO - Processed 24000000 reads so far
2011-05-20 02:31:58,032 - INFO - Processed 24100000 reads so far
2011-05-20 02:32:06,289 - INFO - Processed 24200000 reads so far
2011-05-20 02:32:16,575 - INFO - Processed 24300000 reads so far
2011-05-20 02:32:24,661 - INFO - Processed 24400000 reads so far
2011-05-20 02:32:33,305 - INFO - Processed 24500000 reads so far
2011-05-20 02:32:42,006 - INFO - Processed 24600000 reads so far
2011-05-20 02:32:52,439 - INFO - Processed 24700000 reads so far
2011-05-20 02:33:02,547 - INFO - Processed 24800000 reads so far
2011-05-20 02:33:11,177 - INFO - Processed 24900000 reads so far
2011-05-20 02:33:20,751 - INFO - Processed 25000000 reads so far
2011-05-20 02:33:22,076 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:22990143-43010143
2011-05-20 02:33:28,759 - INFO - Processed 25100000 reads so far
2011-05-20 02:33:39,384 - INFO - Processed 25200000 reads so far
2011-05-20 02:33:48,548 - INFO - Processed 25300000 reads so far
2011-05-20 02:33:57,057 - INFO - Processed 25400000 reads so far
2011-05-20 02:34:05,275 - INFO - Processed 25500000 reads so far
2011-05-20 02:34:15,721 - INFO - Processed 25600000 reads so far
2011-05-20 02:34:24,586 - INFO - Processed 25700000 reads so far
2011-05-20 02:34:33,621 - INFO - Processed 25800000 reads so far
2011-05-20 02:34:42,425 - INFO - Processed 25900000 reads so far
2011-05-20 02:34:52,700 - INFO - Processed 26000000 reads so far
2011-05-20 02:35:02,644 - INFO - Processed 26100000 reads so far
2011-05-20 02:35:11,099 - INFO - Processed 26200000 reads so far
2011-05-20 02:35:19,587 - INFO - Processed 26300000 reads so far
2011-05-20 02:35:22,776 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:42990190-63010190
2011-05-20 02:35:28,683 - INFO - Processed 26400000 reads so far
2011-05-20 02:35:37,429 - INFO - Processed 26500000 reads so far
2011-05-20 02:35:45,943 - INFO - Processed 26600000 reads so far
2011-05-20 02:35:55,378 - INFO - Processed 26700000 reads so far
2011-05-20 02:36:04,348 - INFO - Processed 26800000 reads so far
2011-05-20 02:36:13,674 - INFO - Processed 26900000 reads so far
2011-05-20 02:36:22,056 - INFO - Processed 27000000 reads so far
2011-05-20 02:36:31,985 - INFO - Processed 27100000 reads so far
2011-05-20 02:36:42,270 - INFO - Processed 27200000 reads so far
2011-05-20 02:36:56,791 - INFO - Processed 27300000 reads so far
2011-05-20 02:37:08,398 - INFO - Processed 27400000 reads so far
2011-05-20 02:37:19,570 - INFO - Processed 27500000 reads so far
2011-05-20 02:37:28,756 - INFO - Processed 27600000 reads so far
2011-05-20 02:37:34,622 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:62990206-83010206
2011-05-20 02:37:37,876 - INFO - Processed 27700000 reads so far
2011-05-20 02:37:47,318 - INFO - Processed 27800000 reads so far
2011-05-20 02:37:57,502 - INFO - Processed 27900000 reads so far
2011-05-20 02:38:05,460 - INFO - Processed 28000000 reads so far
2011-05-20 02:38:14,966 - INFO - Processed 28100000 reads so far
2011-05-20 02:38:23,393 - INFO - Processed 28200000 reads so far
2011-05-20 02:38:31,000 - INFO - Processed 28300000 reads so far
2011-05-20 02:38:39,157 - INFO - Processed 28400000 reads so far
2011-05-20 02:38:46,919 - INFO - Processed 28500000 reads so far
2011-05-20 02:38:55,208 - INFO - Processed 28600000 reads so far
2011-05-20 02:39:03,354 - INFO - Processed 28700000 reads so far
2011-05-20 02:39:11,095 - INFO - Processed 28800000 reads so far
2011-05-20 02:39:19,718 - INFO - Processed 28900000 reads so far
2011-05-20 02:39:24,709 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:82990222-103010222
2011-05-20 02:39:28,006 - INFO - Processed 29000000 reads so far
2011-05-20 02:39:35,754 - INFO - Processed 29100000 reads so far
2011-05-20 02:39:43,040 - INFO - Processed 29200000 reads so far
2011-05-20 02:39:50,956 - INFO - Processed 29300000 reads so far
2011-05-20 02:39:59,430 - INFO - Processed 29400000 reads so far
2011-05-20 02:40:07,550 - INFO - Processed 29500000 reads so far
2011-05-20 02:40:16,302 - INFO - Processed 29600000 reads so far
2011-05-20 02:40:24,866 - INFO - Processed 29700000 reads so far
2011-05-20 02:40:34,346 - INFO - Processed 29800000 reads so far
2011-05-20 02:40:46,680 - INFO - Processed 29900000 reads so far
2011-05-20 02:40:57,642 - INFO - Processed 30000000 reads so far
2011-05-20 02:41:08,958 - INFO - Processed 30100000 reads so far
2011-05-20 02:41:18,033 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:102990264-123010264
2011-05-20 02:41:20,002 - INFO - Processed 30200000 reads so far
2011-05-20 02:41:32,267 - INFO - Processed 30300000 reads so far
2011-05-20 02:41:41,245 - INFO - Processed 30400000 reads so far
2011-05-20 02:41:50,599 - INFO - Processed 30500000 reads so far
2011-05-20 02:41:58,847 - INFO - Processed 30600000 reads so far
2011-05-20 02:42:06,879 - INFO - Processed 30700000 reads so far
2011-05-20 02:42:15,793 - INFO - Processed 30800000 reads so far
2011-05-20 02:42:25,603 - INFO - Processed 30900000 reads so far
2011-05-20 02:42:34,275 - INFO - Processed 31000000 reads so far
2011-05-20 02:42:42,903 - INFO - Processed 31100000 reads so far
2011-05-20 02:42:50,796 - INFO - Processed 31200000 reads so far
2011-05-20 02:42:59,469 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13_random:0-20010000
2011-05-20 02:43:00,693 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:2990008-23010008
2011-05-20 02:43:01,278 - INFO - Processed 31300000 reads so far
2011-05-20 02:43:10,175 - INFO - Processed 31400000 reads so far
2011-05-20 02:43:19,596 - INFO - Processed 31500000 reads so far
2011-05-20 02:43:28,302 - INFO - Processed 31600000 reads so far
2011-05-20 02:43:36,491 - INFO - Processed 31700000 reads so far
2011-05-20 02:43:46,030 - INFO - Processed 31800000 reads so far
2011-05-20 02:43:55,744 - INFO - Processed 31900000 reads so far
2011-05-20 02:44:05,232 - INFO - Processed 32000000 reads so far
2011-05-20 02:44:14,331 - INFO - Processed 32100000 reads so far
2011-05-20 02:44:23,487 - INFO - Processed 32200000 reads so far
2011-05-20 02:44:31,590 - INFO - Processed 32300000 reads so far
2011-05-20 02:44:41,319 - INFO - Processed 32400000 reads so far
2011-05-20 02:44:46,839 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:22990030-43010030
2011-05-20 02:44:49,759 - INFO - Processed 32500000 reads so far
2011-05-20 02:44:58,455 - INFO - Processed 32600000 reads so far
2011-05-20 02:45:10,436 - INFO - Processed 32700000 reads so far
2011-05-20 02:45:21,486 - INFO - Processed 32800000 reads so far
2011-05-20 02:45:31,662 - INFO - Processed 32900000 reads so far
2011-05-20 02:45:41,075 - INFO - Processed 33000000 reads so far
2011-05-20 02:45:52,902 - INFO - Processed 33100000 reads so far
2011-05-20 02:46:02,699 - INFO - Processed 33200000 reads so far
2011-05-20 02:46:10,875 - INFO - Processed 33300000 reads so far
2011-05-20 02:46:21,109 - INFO - Processed 33400000 reads so far
2011-05-20 02:46:31,098 - INFO - Processed 33500000 reads so far
2011-05-20 02:46:41,253 - INFO - Processed 33600000 reads so far
2011-05-20 02:46:54,415 - INFO - Processed 33700000 reads so far
2011-05-20 02:46:58,983 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:42990088-63010088
2011-05-20 02:47:03,119 - INFO - Processed 33800000 reads so far
2011-05-20 02:47:12,792 - INFO - Processed 33900000 reads so far
2011-05-20 02:47:59,019 - INFO - Processed 34000000 reads so far
2011-05-20 02:48:10,061 - INFO - Processed 34100000 reads so far
2011-05-20 02:48:20,588 - INFO - Processed 34200000 reads so far
2011-05-20 02:48:31,738 - INFO - Processed 34300000 reads so far
2011-05-20 02:48:43,826 - INFO - Processed 34400000 reads so far
2011-05-20 02:48:54,054 - INFO - Processed 34500000 reads so far
2011-05-20 02:49:05,069 - INFO - Processed 34600000 reads so far
2011-05-20 02:49:15,220 - INFO - Processed 34700000 reads so far
2011-05-20 02:49:23,801 - INFO - Processed 34800000 reads so far
2011-05-20 02:49:33,683 - INFO - Processed 34900000 reads so far
2011-05-20 02:49:42,041 - INFO - Processed 35000000 reads so far
2011-05-20 02:49:43,109 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:62990096-83010096
2011-05-20 02:49:51,205 - INFO - Processed 35100000 reads so far
2011-05-20 02:50:00,054 - INFO - Processed 35200000 reads so far
2011-05-20 02:50:09,536 - INFO - Processed 35300000 reads so far
2011-05-20 02:50:19,993 - INFO - Processed 35400000 reads so far
2011-05-20 02:50:28,901 - INFO - Processed 35500000 reads so far
2011-05-20 02:50:38,334 - INFO - Processed 35600000 reads so far
2011-05-20 02:50:48,995 - INFO - Processed 35700000 reads so far
2011-05-20 02:50:58,406 - INFO - Processed 35800000 reads so far
2011-05-20 02:51:09,224 - INFO - Processed 35900000 reads so far
2011-05-20 02:51:19,467 - INFO - Processed 36000000 reads so far
2011-05-20 02:51:30,225 - INFO - Processed 36100000 reads so far
2011-05-20 02:51:39,769 - INFO - Processed 36200000 reads so far
2011-05-20 02:51:48,731 - INFO - Processed 36300000 reads so far
2011-05-20 02:51:50,848 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:82990128-103010128
2011-05-20 02:51:58,158 - INFO - Processed 36400000 reads so far
2011-05-20 02:52:08,433 - INFO - Processed 36500000 reads so far
2011-05-20 02:52:19,005 - INFO - Processed 36600000 reads so far
2011-05-20 02:52:29,045 - INFO - Processed 36700000 reads so far
2011-05-20 02:52:38,474 - INFO - Processed 36800000 reads so far
2011-05-20 02:52:47,707 - INFO - Processed 36900000 reads so far
2011-05-20 02:52:57,319 - INFO - Processed 37000000 reads so far
2011-05-20 02:53:07,883 - INFO - Processed 37100000 reads so far
2011-05-20 02:53:17,839 - INFO - Processed 37200000 reads so far
2011-05-20 02:53:26,589 - INFO - Processed 37300000 reads so far
2011-05-20 02:53:35,027 - INFO - Processed 37400000 reads so far
2011-05-20 02:53:45,168 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:102990139-123010139
2011-05-20 02:53:46,293 - INFO - Processed 37500000 reads so far
2011-05-20 02:53:57,302 - INFO - Processed 37600000 reads so far
2011-05-20 02:54:08,528 - INFO - Processed 37700000 reads so far
2011-05-20 02:54:19,225 - INFO - Processed 37800000 reads so far
2011-05-20 02:54:30,352 - INFO - Processed 37900000 reads so far
2011-05-20 02:54:41,316 - INFO - Processed 38000000 reads so far
2011-05-20 02:54:52,139 - INFO - Processed 38100000 reads so far
2011-05-20 02:55:01,600 - INFO - Processed 38200000 reads so far
2011-05-20 02:55:10,375 - INFO - Processed 38300000 reads so far
2011-05-20 02:55:42,194 - INFO - Processed 38400000 reads so far
2011-05-20 02:55:53,457 - INFO - Processed 38500000 reads so far
2011-05-20 02:56:03,357 - INFO - Processed 38600000 reads so far
2011-05-20 02:56:12,916 - INFO - Processed 38700000 reads so far
2011-05-20 02:56:15,718 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:122990215-143010215
2011-05-20 02:56:24,118 - INFO - Processed 38800000 reads so far
2011-05-20 02:56:30,348 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:2990002-23010002
2011-05-20 02:56:34,506 - INFO - Processed 38900000 reads so far
2011-05-20 02:56:44,487 - INFO - Processed 39000000 reads so far
2011-05-20 02:56:54,672 - INFO - Processed 39100000 reads so far
2011-05-20 02:57:02,944 - INFO - Processed 39200000 reads so far
2011-05-20 02:57:12,774 - INFO - Processed 39300000 reads so far
2011-05-20 02:57:21,437 - INFO - Processed 39400000 reads so far
2011-05-20 02:57:30,287 - INFO - Processed 39500000 reads so far
2011-05-20 02:57:38,244 - INFO - Processed 39600000 reads so far
2011-05-20 02:57:47,967 - INFO - Processed 39700000 reads so far
2011-05-20 02:57:57,105 - INFO - Processed 39800000 reads so far
2011-05-20 02:58:05,768 - INFO - Processed 39900000 reads so far
2011-05-20 02:58:15,691 - INFO - Processed 40000000 reads so far
2011-05-20 02:58:23,162 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:22990009-43010009
2011-05-20 02:58:24,144 - INFO - Processed 40100000 reads so far
2011-05-20 02:58:32,377 - INFO - Processed 40200000 reads so far
2011-05-20 02:58:41,185 - INFO - Processed 40300000 reads so far
2011-05-20 02:58:50,770 - INFO - Processed 40400000 reads so far
2011-05-20 02:59:00,127 - INFO - Processed 40500000 reads so far
2011-05-20 02:59:09,364 - INFO - Processed 40600000 reads so far
2011-05-20 02:59:18,439 - INFO - Processed 40700000 reads so far
2011-05-20 02:59:27,217 - INFO - Processed 40800000 reads so far
2011-05-20 02:59:36,776 - INFO - Processed 40900000 reads so far
2011-05-20 02:59:44,727 - INFO - Processed 41000000 reads so far
2011-05-20 02:59:54,235 - INFO - Processed 41100000 reads so far
2011-05-20 03:00:03,027 - INFO - Processed 41200000 reads so far
2011-05-20 03:00:10,089 - INFO - Processed 41300000 reads so far
2011-05-20 03:00:16,962 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:42990026-63010026
2011-05-20 03:00:18,300 - INFO - Processed 41400000 reads so far
2011-05-20 03:00:27,366 - INFO - Processed 41500000 reads so far
2011-05-20 03:00:34,624 - INFO - Processed 41600000 reads so far
2011-05-20 03:00:44,053 - INFO - Processed 41700000 reads so far
2011-05-20 03:00:52,668 - INFO - Processed 41800000 reads so far
2011-05-20 03:01:00,676 - INFO - Processed 41900000 reads so far
2011-05-20 03:01:09,251 - INFO - Processed 42000000 reads so far
2011-05-20 03:01:18,280 - INFO - Processed 42100000 reads so far
2011-05-20 03:01:27,657 - INFO - Processed 42200000 reads so far
2011-05-20 03:01:39,125 - INFO - Processed 42300000 reads so far
2011-05-20 03:01:49,069 - INFO - Processed 42400000 reads so far
2011-05-20 03:01:57,159 - INFO - Processed 42500000 reads so far
2011-05-20 03:02:05,985 - INFO - Processed 42600000 reads so far
2011-05-20 03:02:09,039 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:62990049-83010049
2011-05-20 03:02:14,277 - INFO - Processed 42700000 reads so far
2011-05-20 03:02:22,740 - INFO - Processed 42800000 reads so far
2011-05-20 03:02:32,466 - INFO - Processed 42900000 reads so far
2011-05-20 03:02:40,709 - INFO - Processed 43000000 reads so far
2011-05-20 03:02:49,378 - INFO - Processed 43100000 reads so far
2011-05-20 03:02:57,273 - INFO - Processed 43200000 reads so far
2011-05-20 03:03:05,297 - INFO - Processed 43300000 reads so far
2011-05-20 03:03:13,998 - INFO - Processed 43400000 reads so far
2011-05-20 03:03:23,195 - INFO - Processed 43500000 reads so far
2011-05-20 03:03:32,451 - INFO - Processed 43600000 reads so far
2011-05-20 03:03:41,184 - INFO - Processed 43700000 reads so far
2011-05-20 03:03:50,575 - INFO - Processed 43800000 reads so far
2011-05-20 03:03:59,752 - INFO - Processed 43900000 reads so far
2011-05-20 03:04:08,929 - INFO - Processed 44000000 reads so far
2011-05-20 03:04:08,942 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:82990068-103010068
2011-05-20 03:04:16,864 - INFO - Processed 44100000 reads so far
2011-05-20 03:04:29,248 - INFO - Processed 44200000 reads so far
2011-05-20 03:04:36,954 - INFO - Processed 44300000 reads so far
2011-05-20 03:04:44,894 - INFO - Processed 44400000 reads so far
2011-05-20 03:04:54,545 - INFO - Processed 44500000 reads so far
2011-05-20 03:05:03,713 - INFO - Processed 44600000 reads so far
2011-05-20 03:05:11,927 - INFO - Processed 44700000 reads so far
2011-05-20 03:05:21,300 - INFO - Processed 44800000 reads so far
2011-05-20 03:05:30,825 - INFO - Processed 44900000 reads so far
2011-05-20 03:05:40,793 - INFO - Processed 45000000 reads so far
2011-05-20 03:05:52,742 - INFO - Processed 45100000 reads so far
2011-05-20 03:06:02,981 - INFO - Processed 45200000 reads so far
2011-05-20 03:06:12,407 - INFO - Processed 45300000 reads so far
2011-05-20 03:06:14,631 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:102990125-123010125
2011-05-20 03:06:17,244 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16:2990096-23010096
2011-05-20 03:06:21,224 - INFO - Processed 45400000 reads so far
2011-05-20 03:06:31,907 - INFO - Processed 45500000 reads so far
2011-05-20 03:06:40,035 - INFO - Processed 45600000 reads so far
2011-05-20 03:06:48,077 - INFO - Processed 45700000 reads so far
2011-05-20 03:06:56,377 - INFO - Processed 45800000 reads so far
2011-05-20 03:07:05,529 - INFO - Processed 45900000 reads so far
2011-05-20 03:07:14,154 - INFO - Processed 46000000 reads so far
2011-05-20 03:07:22,377 - INFO - Processed 46100000 reads so far
2011-05-20 03:07:30,493 - INFO - Processed 46200000 reads so far
2011-05-20 03:07:38,422 - INFO - Processed 46300000 reads so far
2011-05-20 03:07:45,731 - INFO - Processed 46400000 reads so far
2011-05-20 03:07:54,375 - INFO - Processed 46500000 reads so far
2011-05-20 03:08:02,713 - INFO - Processed 46600000 reads so far
2011-05-20 03:08:10,979 - INFO - Processed 46700000 reads so far
2011-05-20 03:08:14,047 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16:22990097-43010097
2011-05-20 03:08:19,294 - INFO - Processed 46800000 reads so far
2011-05-20 03:08:27,092 - INFO - Processed 46900000 reads so far
2011-05-20 03:08:35,259 - INFO - Processed 47000000 reads so far
2011-05-20 03:08:45,386 - INFO - Processed 47100000 reads so far
2011-05-20 03:08:53,785 - INFO - Processed 47200000 reads so far
2011-05-20 03:09:01,867 - INFO - Processed 47300000 reads so far
2011-05-20 03:09:09,989 - INFO - Processed 47400000 reads so far
2011-05-20 03:09:17,990 - INFO - Processed 47500000 reads so far
2011-05-20 03:09:25,532 - INFO - Processed 47600000 reads so far
2011-05-20 03:09:36,003 - INFO - Processed 47700000 reads so far
2011-05-20 03:09:45,927 - INFO - Processed 47800000 reads so far
2011-05-20 03:09:53,978 - INFO - Processed 47900000 reads so far
2011-05-20 03:10:02,032 - INFO - Processed 48000000 reads so far
2011-05-20 03:10:03,154 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16:42990113-63010113
2011-05-20 03:10:11,928 - INFO - Processed 48100000 reads so far
2011-05-20 03:10:20,612 - INFO - Processed 48200000 reads so far
2011-05-20 03:10:29,234 - INFO - Processed 48300000 reads so far
2011-05-20 03:10:37,511 - INFO - Processed 48400000 reads so far
2011-05-20 03:10:45,382 - INFO - Processed 48500000 reads so far
2011-05-20 03:10:54,569 - INFO - Processed 48600000 reads so far
2011-05-20 03:11:05,212 - INFO - Processed 48700000 reads so far
2011-05-20 03:11:13,971 - INFO - Processed 48800000 reads so far
2011-05-20 03:11:21,602 - INFO - Processed 48900000 reads so far
2011-05-20 03:11:29,504 - INFO - Processed 49000000 reads so far
2011-05-20 03:11:37,340 - INFO - Processed 49100000 reads so far
2011-05-20 03:11:45,133 - INFO - Processed 49200000 reads so far
2011-05-20 03:11:51,329 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16:62990120-83010120
2011-05-20 03:11:54,935 - INFO - Processed 49300000 reads so far
2011-05-20 03:12:03,243 - INFO - Processed 49400000 reads so far
2011-05-20 03:12:13,174 - INFO - Processed 49500000 reads so far
2011-05-20 03:12:20,925 - INFO - Processed 49600000 reads so far
2011-05-20 03:12:29,038 - INFO - Processed 49700000 reads so far
2011-05-20 03:12:37,780 - INFO - Processed 49800000 reads so far
2011-05-20 03:12:47,391 - INFO - Processed 49900000 reads so far
2011-05-20 03:12:56,573 - INFO - Processed 50000000 reads so far
2011-05-20 03:13:05,401 - INFO - Processed 50100000 reads so far
2011-05-20 03:13:13,258 - INFO - Processed 50200000 reads so far
2011-05-20 03:13:21,917 - INFO - Processed 50300000 reads so far
2011-05-20 03:13:29,472 - INFO - Processed 50400000 reads so far
2011-05-20 03:13:33,667 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16:82990142-103010142
2011-05-20 03:13:36,894 - INFO - Processed 50500000 reads so far
2011-05-20 03:13:45,050 - INFO - Processed 50600000 reads so far
2011-05-20 03:13:53,902 - INFO - Processed 50700000 reads so far
2011-05-20 03:14:03,314 - INFO - Processed 50800000 reads so far
2011-05-20 03:14:12,812 - INFO - Processed 50900000 reads so far
2011-05-20 03:14:21,410 - INFO - Processed 51000000 reads so far
2011-05-20 03:14:29,333 - INFO - Processed 51100000 reads so far
2011-05-20 03:14:37,637 - INFO - Processed 51200000 reads so far
2011-05-20 03:14:47,405 - INFO - Processed 51300000 reads so far
2011-05-20 03:14:55,770 - INFO - Processed 51400000 reads so far
2011-05-20 03:15:00,438 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16_random:0-20010054
2011-05-20 03:15:00,460 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17:2989999-23009999
2011-05-20 03:15:05,104 - INFO - Processed 51500000 reads so far
2011-05-20 03:15:13,517 - INFO - Processed 51600000 reads so far
2011-05-20 03:15:22,045 - INFO - Processed 51700000 reads so far
2011-05-20 03:15:29,873 - INFO - Processed 51800000 reads so far
2011-05-20 03:15:39,684 - INFO - Processed 51900000 reads so far
2011-05-20 03:15:47,769 - INFO - Processed 52000000 reads so far
2011-05-20 03:15:55,801 - INFO - Processed 52100000 reads so far
2011-05-20 03:16:05,491 - INFO - Processed 52200000 reads so far
2011-05-20 03:16:13,597 - INFO - Processed 52300000 reads so far
2011-05-20 03:16:23,415 - INFO - Processed 52400000 reads so far
2011-05-20 03:16:33,014 - INFO - Processed 52500000 reads so far
2011-05-20 03:16:43,783 - INFO - Processed 52600000 reads so far
2011-05-20 03:16:51,457 - INFO - Processed 52700000 reads so far
2011-05-20 03:16:57,083 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17:22990057-43010057
2011-05-20 03:16:59,192 - INFO - Processed 52800000 reads so far
2011-05-20 03:17:07,235 - INFO - Processed 52900000 reads so far
2011-05-20 03:17:15,820 - INFO - Processed 53000000 reads so far
2011-05-20 03:17:24,633 - INFO - Processed 53100000 reads so far
2011-05-20 03:17:34,109 - INFO - Processed 53200000 reads so far
2011-05-20 03:17:43,605 - INFO - Processed 53300000 reads so far
2011-05-20 03:17:55,993 - INFO - Processed 53400000 reads so far
2011-05-20 03:18:06,327 - INFO - Processed 53500000 reads so far
2011-05-20 03:18:16,850 - INFO - Processed 53600000 reads so far
2011-05-20 03:18:27,567 - INFO - Processed 53700000 reads so far
2011-05-20 03:18:37,995 - INFO - Processed 53800000 reads so far
2011-05-20 03:18:48,172 - INFO - Processed 53900000 reads so far
2011-05-20 03:18:58,823 - INFO - Processed 54000000 reads so far
2011-05-20 03:19:11,337 - INFO - Processed 54100000 reads so far
2011-05-20 03:19:15,933 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17:42990076-63010076
2011-05-20 03:19:21,729 - INFO - Processed 54200000 reads so far
2011-05-20 03:19:30,307 - INFO - Processed 54300000 reads so far
2011-05-20 03:19:39,925 - INFO - Processed 54400000 reads so far
2011-05-20 03:19:50,632 - INFO - Processed 54500000 reads so far
2011-05-20 03:19:59,927 - INFO - Processed 54600000 reads so far
2011-05-20 03:20:08,614 - INFO - Processed 54700000 reads so far
2011-05-20 03:20:16,438 - INFO - Processed 54800000 reads so far
2011-05-20 03:20:26,103 - INFO - Processed 54900000 reads so far
2011-05-20 03:20:36,313 - INFO - Processed 55000000 reads so far
2011-05-20 03:20:45,571 - INFO - Processed 55100000 reads so far
2011-05-20 03:20:54,088 - INFO - Processed 55200000 reads so far
2011-05-20 03:21:02,177 - INFO - Processed 55300000 reads so far
2011-05-20 03:21:11,863 - INFO - Processed 55400000 reads so far
2011-05-20 03:21:12,004 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17:62990083-83010083
2011-05-20 03:21:20,530 - INFO - Processed 55500000 reads so far
2011-05-20 03:21:30,412 - INFO - Processed 55600000 reads so far
2011-05-20 03:21:39,629 - INFO - Processed 55700000 reads so far
2011-05-20 03:21:47,774 - INFO - Processed 55800000 reads so far
2011-05-20 03:21:56,727 - INFO - Processed 55900000 reads so far
2011-05-20 03:22:06,215 - INFO - Processed 56000000 reads so far
2011-05-20 03:22:16,276 - INFO - Processed 56100000 reads so far
2011-05-20 03:22:25,794 - INFO - Processed 56200000 reads so far
2011-05-20 03:22:36,846 - INFO - Processed 56300000 reads so far
2011-05-20 03:22:46,618 - INFO - Processed 56400000 reads so far
2011-05-20 03:22:55,772 - INFO - Processed 56500000 reads so far
2011-05-20 03:23:03,849 - INFO - Processed 56600000 reads so far
2011-05-20 03:23:10,960 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17:82990137-103010137
2011-05-20 03:23:11,878 - INFO - Processed 56700000 reads so far
2011-05-20 03:23:20,263 - INFO - Processed 56800000 reads so far
2011-05-20 03:23:28,429 - INFO - Processed 56900000 reads so far
2011-05-20 03:23:36,138 - INFO - Processed 57000000 reads so far
2011-05-20 03:23:43,969 - INFO - Processed 57100000 reads so far
2011-05-20 03:23:51,958 - INFO - Processed 57200000 reads so far
2011-05-20 03:24:00,184 - INFO - Processed 57300000 reads so far
2011-05-20 03:24:08,748 - INFO - Processed 57400000 reads so far
2011-05-20 03:24:13,596 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17_random:0-20010119
2011-05-20 03:24:15,049 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr18:2989999-23009999
2011-05-20 03:24:16,439 - INFO - Processed 57500000 reads so far
2011-05-20 03:24:23,939 - INFO - Processed 57600000 reads so far
2011-05-20 03:24:32,197 - INFO - Processed 57700000 reads so far
2011-05-20 03:24:41,334 - INFO - Processed 57800000 reads so far
2011-05-20 03:24:50,544 - INFO - Processed 57900000 reads so far
2011-05-20 03:25:00,251 - INFO - Processed 58000000 reads so far
2011-05-20 03:25:09,667 - INFO - Processed 58100000 reads so far
2011-05-20 03:25:17,487 - INFO - Processed 58200000 reads so far
2011-05-20 03:25:26,189 - INFO - Processed 58300000 reads so far
2011-05-20 03:25:36,049 - INFO - Processed 58400000 reads so far
2011-05-20 03:25:44,530 - INFO - Processed 58500000 reads so far
2011-05-20 03:25:53,046 - INFO - Processed 58600000 reads so far
2011-05-20 03:26:02,027 - INFO - Processed 58700000 reads so far
2011-05-20 03:26:09,796 - INFO - Processed 58800000 reads so far
2011-05-20 03:26:10,630 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr18:22990001-43010001
2011-05-20 03:26:19,577 - INFO - Processed 58900000 reads so far
2011-05-20 03:26:27,410 - INFO - Processed 59000000 reads so far
2011-05-20 03:26:35,223 - INFO - Processed 59100000 reads so far
2011-05-20 03:26:43,699 - INFO - Processed 59200000 reads so far
2011-05-20 03:26:51,657 - INFO - Processed 59300000 reads so far
2011-05-20 03:26:59,445 - INFO - Processed 59400000 reads so far
2011-05-20 03:27:07,314 - INFO - Processed 59500000 reads so far
2011-05-20 03:27:15,521 - INFO - Processed 59600000 reads so far
2011-05-20 03:27:24,348 - INFO - Processed 59700000 reads so far
2011-05-20 03:27:34,005 - INFO - Processed 59800000 reads so far
2011-05-20 03:27:42,220 - INFO - Processed 59900000 reads so far
2011-05-20 03:27:49,987 - INFO - Processed 60000000 reads so far
2011-05-20 03:27:58,696 - INFO - Processed 60100000 reads so far
2011-05-20 03:27:59,359 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr18:42990010-63010010
2011-05-20 03:28:10,876 - INFO - Processed 60200000 reads so far
2011-05-20 03:28:21,447 - INFO - Processed 60300000 reads so far
2011-05-20 03:28:32,155 - INFO - Processed 60400000 reads so far
2011-05-20 03:28:44,835 - INFO - Processed 60500000 reads so far
2011-05-20 03:28:55,927 - INFO - Processed 60600000 reads so far
2011-05-20 03:29:06,621 - INFO - Processed 60700000 reads so far
2011-05-20 03:29:20,066 - INFO - Processed 60800000 reads so far
2011-05-20 03:29:31,803 - INFO - Processed 60900000 reads so far
2011-05-20 03:29:42,304 - INFO - Processed 61000000 reads so far
2011-05-20 03:29:52,102 - INFO - Processed 61100000 reads so far
2011-05-20 03:30:00,475 - INFO - Processed 61200000 reads so far
2011-05-20 03:30:11,449 - INFO - Processed 61300000 reads so far
2011-05-20 03:30:21,003 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr18:62990013-83010013
2011-05-20 03:30:22,423 - INFO - Processed 61400000 reads so far
2011-05-20 03:30:35,097 - INFO - Processed 61500000 reads so far
2011-05-20 03:30:42,474 - INFO - Processed 61600000 reads so far
2011-05-20 03:30:51,644 - INFO - Processed 61700000 reads so far
2011-05-20 03:30:58,943 - INFO - Processed 61800000 reads so far
2011-05-20 03:31:08,431 - INFO - Processed 61900000 reads so far
2011-05-20 03:31:16,615 - INFO - Processed 62000000 reads so far
2011-05-20 03:31:25,672 - INFO - Processed 62100000 reads so far
2011-05-20 03:31:34,952 - INFO - Processed 62200000 reads so far
2011-05-20 03:31:43,086 - INFO - Processed 62300000 reads so far
2011-05-20 03:31:52,932 - INFO - Processed 62400000 reads so far
2011-05-20 03:32:00,321 - INFO - Processed 62500000 reads so far
2011-05-20 03:32:09,965 - INFO - Processed 62600000 reads so far
2011-05-20 03:32:17,616 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr18:82990049-103010049
2011-05-20 03:32:18,025 - INFO - Processed 62700000 reads so far
2011-05-20 03:32:27,581 - INFO - Processed 62800000 reads so far
2011-05-20 03:32:38,393 - INFO - Processed 62900000 reads so far
2011-05-20 03:32:47,283 - INFO - Processed 63000000 reads so far
2011-05-20 03:32:58,856 - INFO - Processed 63100000 reads so far
2011-05-20 03:33:07,791 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr19:2990025-23010025
2011-05-20 03:33:09,598 - INFO - Processed 63200000 reads so far
2011-05-20 03:33:18,651 - INFO - Processed 63300000 reads so far
2011-05-20 03:33:28,497 - INFO - Processed 63400000 reads so far
2011-05-20 03:33:38,866 - INFO - Processed 63500000 reads so far
2011-05-20 03:33:49,578 - INFO - Processed 63600000 reads so far
2011-05-20 03:33:57,841 - INFO - Processed 63700000 reads so far
2011-05-20 03:34:08,248 - INFO - Processed 63800000 reads so far
2011-05-20 03:34:17,924 - INFO - Processed 63900000 reads so far
2011-05-20 03:34:26,230 - INFO - Processed 64000000 reads so far
2011-05-20 03:34:34,615 - INFO - Processed 64100000 reads so far
2011-05-20 03:34:46,356 - INFO - Processed 64200000 reads so far
2011-05-20 03:34:54,886 - INFO - Processed 64300000 reads so far
2011-05-20 03:35:05,066 - INFO - Processed 64400000 reads so far
2011-05-20 03:35:11,116 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr19:22990050-43010050
2011-05-20 03:35:15,750 - INFO - Processed 64500000 reads so far
2011-05-20 03:35:24,343 - INFO - Processed 64600000 reads so far
2011-05-20 03:35:32,310 - INFO - Processed 64700000 reads so far
2011-05-20 03:35:42,860 - INFO - Processed 64800000 reads so far
2011-05-20 03:35:54,904 - INFO - Processed 64900000 reads so far
2011-05-20 03:36:06,081 - INFO - Processed 65000000 reads so far
2011-05-20 03:36:16,850 - INFO - Processed 65100000 reads so far
2011-05-20 03:36:27,277 - INFO - Processed 65200000 reads so far
2011-05-20 03:36:38,186 - INFO - Processed 65300000 reads so far
2011-05-20 03:36:49,055 - INFO - Processed 65400000 reads so far
2011-05-20 03:37:01,768 - INFO - Processed 65500000 reads so far
2011-05-20 03:37:10,879 - INFO - Processed 65600000 reads so far
2011-05-20 03:37:21,850 - INFO - Processed 65700000 reads so far
2011-05-20 03:37:27,310 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr19:42990051-63010051
2011-05-20 03:37:32,672 - INFO - Processed 65800000 reads so far
2011-05-20 03:37:43,637 - INFO - Processed 65900000 reads so far
2011-05-20 03:37:54,747 - INFO - Processed 66000000 reads so far
2011-05-20 03:38:05,972 - INFO - Processed 66100000 reads so far
2011-05-20 03:38:13,382 - INFO - Processed 66200000 reads so far
2011-05-20 03:38:21,041 - INFO - Processed 66300000 reads so far
2011-05-20 03:38:27,736 - INFO - Processed 66400000 reads so far
2011-05-20 03:38:35,341 - INFO - Processed 66500000 reads so far
2011-05-20 03:38:43,349 - INFO - Processed 66600000 reads so far
2011-05-20 03:38:50,175 - INFO - Processed 66700000 reads so far
2011-05-20 03:39:00,365 - INFO - Processed 66800000 reads so far
2011-05-20 03:39:09,132 - INFO - Processed 66900000 reads so far
2011-05-20 03:39:12,795 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:2989966-23009966
2011-05-20 03:39:18,166 - INFO - Processed 67000000 reads so far
2011-05-20 03:39:27,607 - INFO - Processed 67100000 reads so far
2011-05-20 03:39:36,561 - INFO - Processed 67200000 reads so far
2011-05-20 03:39:43,941 - INFO - Processed 67300000 reads so far
2011-05-20 03:39:51,161 - INFO - Processed 67400000 reads so far
2011-05-20 03:39:59,751 - INFO - Processed 67500000 reads so far
2011-05-20 03:40:09,023 - INFO - Processed 67600000 reads so far
2011-05-20 03:40:18,080 - INFO - Processed 67700000 reads so far
2011-05-20 03:40:26,396 - INFO - Processed 67800000 reads so far
2011-05-20 03:40:36,371 - INFO - Processed 67900000 reads so far
2011-05-20 03:40:48,818 - INFO - Processed 68000000 reads so far
2011-05-20 03:40:59,822 - INFO - Processed 68100000 reads so far
2011-05-20 03:41:10,823 - INFO - Processed 68200000 reads so far
2011-05-20 03:41:12,565 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:22989990-43009990
2011-05-20 03:41:21,909 - INFO - Processed 68300000 reads so far
2011-05-20 03:41:32,644 - INFO - Processed 68400000 reads so far
2011-05-20 03:41:43,864 - INFO - Processed 68500000 reads so far
2011-05-20 03:41:55,021 - INFO - Processed 68600000 reads so far
2011-05-20 03:42:07,238 - INFO - Processed 68700000 reads so far
2011-05-20 03:42:20,677 - INFO - Processed 68800000 reads so far
2011-05-20 03:42:31,662 - INFO - Processed 68900000 reads so far
2011-05-20 03:42:42,941 - INFO - Processed 69000000 reads so far
2011-05-20 03:42:54,002 - INFO - Processed 69100000 reads so far
2011-05-20 03:43:05,375 - INFO - Processed 69200000 reads so far
2011-05-20 03:43:17,666 - INFO - Processed 69300000 reads so far
2011-05-20 03:43:28,502 - INFO - Processed 69400000 reads so far
2011-05-20 03:43:38,481 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:42990020-63010020
2011-05-20 03:43:39,124 - INFO - Processed 69500000 reads so far
2011-05-20 03:43:50,211 - INFO - Processed 69600000 reads so far
2011-05-20 03:44:01,180 - INFO - Processed 69700000 reads so far
2011-05-20 03:44:11,914 - INFO - Processed 69800000 reads so far
2011-05-20 03:44:22,455 - INFO - Processed 69900000 reads so far
2011-05-20 03:44:34,189 - INFO - Processed 70000000 reads so far
2011-05-20 03:44:46,600 - INFO - Processed 70100000 reads so far
2011-05-20 03:44:55,433 - INFO - Processed 70200000 reads so far
2011-05-20 03:45:07,242 - INFO - Processed 70300000 reads so far
2011-05-20 03:45:18,208 - INFO - Processed 70400000 reads so far
2011-05-20 03:45:29,480 - INFO - Processed 70500000 reads so far
2011-05-20 03:45:39,228 - INFO - Processed 70600000 reads so far
2011-05-20 03:45:48,827 - INFO - Processed 70700000 reads so far
2011-05-20 03:45:56,648 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:62990044-83010044
2011-05-20 03:46:01,089 - INFO - Processed 70800000 reads so far
2011-05-20 03:46:09,199 - INFO - Processed 70900000 reads so far
2011-05-20 03:46:17,551 - INFO - Processed 71000000 reads so far
2011-05-20 03:46:26,355 - INFO - Processed 71100000 reads so far
2011-05-20 03:46:36,122 - INFO - Processed 71200000 reads so far
2011-05-20 03:46:44,647 - INFO - Processed 71300000 reads so far
2011-05-20 03:46:52,651 - INFO - Processed 71400000 reads so far
2011-05-20 03:47:01,303 - INFO - Processed 71500000 reads so far
2011-05-20 03:47:08,816 - INFO - Processed 71600000 reads so far
2011-05-20 03:47:17,082 - INFO - Processed 71700000 reads so far
2011-05-20 03:47:25,344 - INFO - Processed 71800000 reads so far
2011-05-20 03:47:35,552 - INFO - Processed 71900000 reads so far
2011-05-20 03:47:43,142 - INFO - Processed 72000000 reads so far
2011-05-20 03:47:45,680 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:82990090-103010090
2011-05-20 03:47:51,285 - INFO - Processed 72100000 reads so far
2011-05-20 03:47:59,160 - INFO - Processed 72200000 reads so far
2011-05-20 03:48:06,346 - INFO - Processed 72300000 reads so far
2011-05-20 03:48:15,404 - INFO - Processed 72400000 reads so far
2011-05-20 03:48:23,764 - INFO - Processed 72500000 reads so far
2011-05-20 03:48:31,455 - INFO - Processed 72600000 reads so far
2011-05-20 03:48:40,800 - INFO - Processed 72700000 reads so far
2011-05-20 03:48:51,533 - INFO - Processed 72800000 reads so far
2011-05-20 03:49:00,222 - INFO - Processed 72900000 reads so far
2011-05-20 03:49:08,673 - INFO - Processed 73000000 reads so far
2011-05-20 03:49:17,669 - INFO - Processed 73100000 reads so far
2011-05-20 03:49:25,505 - INFO - Processed 73200000 reads so far
2011-05-20 03:49:33,614 - INFO - Processed 73300000 reads so far
2011-05-20 03:49:42,632 - INFO - Processed 73400000 reads so far
2011-05-20 03:49:44,089 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:102990117-123010117
2011-05-20 03:49:52,226 - INFO - Processed 73500000 reads so far
2011-05-20 03:50:00,907 - INFO - Processed 73600000 reads so far
2011-05-20 03:50:08,914 - INFO - Processed 73700000 reads so far
2011-05-20 03:50:17,440 - INFO - Processed 73800000 reads so far
2011-05-20 03:50:26,433 - INFO - Processed 73900000 reads so far
2011-05-20 03:50:36,591 - INFO - Processed 74000000 reads so far
2011-05-20 03:50:44,934 - INFO - Processed 74100000 reads so far
2011-05-20 03:50:52,780 - INFO - Processed 74200000 reads so far
2011-05-20 03:51:00,462 - INFO - Processed 74300000 reads so far
2011-05-20 03:51:08,713 - INFO - Processed 74400000 reads so far
2011-05-20 03:51:17,720 - INFO - Processed 74500000 reads so far
2011-05-20 03:51:25,776 - INFO - Processed 74600000 reads so far
2011-05-20 03:51:31,774 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:122990136-143010136
2011-05-20 03:51:33,203 - INFO - Processed 74700000 reads so far
2011-05-20 03:51:42,400 - INFO - Processed 74800000 reads so far
2011-05-20 03:51:51,819 - INFO - Processed 74900000 reads so far
2011-05-20 03:52:02,540 - INFO - Processed 75000000 reads so far
2011-05-20 03:52:11,142 - INFO - Processed 75100000 reads so far
2011-05-20 03:52:19,331 - INFO - Processed 75200000 reads so far
2011-05-20 03:52:29,416 - INFO - Processed 75300000 reads so far
2011-05-20 03:52:38,348 - INFO - Processed 75400000 reads so far
2011-05-20 03:52:50,155 - INFO - Processed 75500000 reads so far
2011-05-20 03:52:58,605 - INFO - Processed 75600000 reads so far
2011-05-20 03:53:09,558 - INFO - Processed 75700000 reads so far
2011-05-20 03:53:19,576 - INFO - Processed 75800000 reads so far
2011-05-20 03:53:27,945 - INFO - Processed 75900000 reads so far
2011-05-20 03:53:37,881 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:142990177-163010177
2011-05-20 03:53:39,757 - INFO - Processed 76000000 reads so far
2011-05-20 03:53:52,251 - INFO - Processed 76100000 reads so far
2011-05-20 03:54:03,016 - INFO - Processed 76200000 reads so far
2011-05-20 03:54:11,738 - INFO - Processed 76300000 reads so far
2011-05-20 03:54:21,079 - INFO - Processed 76400000 reads so far
2011-05-20 03:54:30,437 - INFO - Processed 76500000 reads so far
2011-05-20 03:54:40,762 - INFO - Processed 76600000 reads so far
2011-05-20 03:54:50,279 - INFO - Processed 76700000 reads so far
2011-05-20 03:55:02,690 - INFO - Processed 76800000 reads so far
2011-05-20 03:55:13,734 - INFO - Processed 76900000 reads so far
2011-05-20 03:55:24,424 - INFO - Processed 77000000 reads so far
2011-05-20 03:55:35,184 - INFO - Processed 77100000 reads so far
2011-05-20 03:55:46,203 - INFO - Processed 77200000 reads so far
2011-05-20 03:55:48,561 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:162990179-183010179
2011-05-20 03:55:57,825 - INFO - Processed 77300000 reads so far
2011-05-20 03:56:09,309 - INFO - Processed 77400000 reads so far
2011-05-20 03:56:19,367 - INFO - Processed 77500000 reads so far
2011-05-20 03:56:29,033 - INFO - Processed 77600000 reads so far
2011-05-20 03:56:38,064 - INFO - Processed 77700000 reads so far
2011-05-20 03:56:48,163 - INFO - Processed 77800000 reads so far
2011-05-20 03:56:57,313 - INFO - Processed 77900000 reads so far
2011-05-20 03:57:06,101 - INFO - Processed 78000000 reads so far
2011-05-20 03:57:14,629 - INFO - Processed 78100000 reads so far
2011-05-20 03:57:25,024 - INFO - Processed 78200000 reads so far
2011-05-20 03:57:34,054 - INFO - Processed 78300000 reads so far
2011-05-20 03:57:43,500 - INFO - Processed 78400000 reads so far
2011-05-20 03:57:51,682 - INFO - Processed 78500000 reads so far
2011-05-20 03:57:57,495 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:182990243-203010243
2011-05-20 03:58:03,661 - INFO - Processed 78600000 reads so far
2011-05-20 03:58:13,891 - INFO - Processed 78700000 reads so far
2011-05-20 03:58:21,928 - INFO - Processed 78800000 reads so far
2011-05-20 03:58:49,923 - INFO - Processed 78900000 reads so far
2011-05-20 03:59:00,615 - INFO - Processed 79000000 reads so far
2011-05-20 03:59:11,936 - INFO - Processed 79100000 reads so far
2011-05-20 03:59:23,069 - INFO - Processed 79200000 reads so far
2011-05-20 03:59:34,505 - INFO - Processed 79300000 reads so far
2011-05-20 03:59:44,150 - INFO - Processed 79400000 reads so far
2011-05-20 03:59:57,244 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1_random:0-20010000
2011-05-20 03:59:58,623 - INFO - Processed 79500000 reads so far
2011-05-20 04:00:08,556 - INFO - Processed 79600000 reads so far
2011-05-20 04:00:14,183 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:2990022-23010022
2011-05-20 04:00:21,324 - INFO - Processed 79700000 reads so far
2011-05-20 04:00:34,587 - INFO - Processed 79800000 reads so far
2011-05-20 04:00:44,320 - INFO - Processed 79900000 reads so far
2011-05-20 04:00:55,504 - INFO - Processed 80000000 reads so far
2011-05-20 04:01:03,375 - INFO - Processed 80100000 reads so far
2011-05-20 04:01:13,942 - INFO - Processed 80200000 reads so far
2011-05-20 04:01:24,318 - INFO - Processed 80300000 reads so far
2011-05-20 04:01:35,133 - INFO - Processed 80400000 reads so far
2011-05-20 04:01:45,434 - INFO - Processed 80500000 reads so far
2011-05-20 04:01:54,117 - INFO - Processed 80600000 reads so far
2011-05-20 04:02:02,235 - INFO - Processed 80700000 reads so far
2011-05-20 04:02:11,706 - INFO - Processed 80800000 reads so far
2011-05-20 04:02:19,770 - INFO - Processed 80900000 reads so far
2011-05-20 04:02:25,890 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:22990086-43010086
2011-05-20 04:02:29,228 - INFO - Processed 81000000 reads so far
2011-05-20 04:02:38,014 - INFO - Processed 81100000 reads so far
2011-05-20 04:02:48,442 - INFO - Processed 81200000 reads so far
2011-05-20 04:02:57,947 - INFO - Processed 81300000 reads so far
2011-05-20 04:03:09,494 - INFO - Processed 81400000 reads so far
2011-05-20 04:03:19,068 - INFO - Processed 81500000 reads so far
2011-05-20 04:03:29,804 - INFO - Processed 81600000 reads so far
2011-05-20 04:03:38,557 - INFO - Processed 81700000 reads so far
2011-05-20 04:03:48,517 - INFO - Processed 81800000 reads so far
2011-05-20 04:03:56,350 - INFO - Processed 81900000 reads so far
2011-05-20 04:04:04,502 - INFO - Processed 82000000 reads so far
2011-05-20 04:04:13,553 - INFO - Processed 82100000 reads so far
2011-05-20 04:04:23,357 - INFO - Processed 82200000 reads so far
2011-05-20 04:04:30,692 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:42990098-63010098
2011-05-20 04:04:32,425 - INFO - Processed 82300000 reads so far
2011-05-20 04:04:44,453 - INFO - Processed 82400000 reads so far
2011-05-20 04:04:54,653 - INFO - Processed 82500000 reads so far
2011-05-20 04:05:05,404 - INFO - Processed 82600000 reads so far
2011-05-20 04:05:16,641 - INFO - Processed 82700000 reads so far
2011-05-20 04:05:28,934 - INFO - Processed 82800000 reads so far
2011-05-20 04:05:40,280 - INFO - Processed 82900000 reads so far
2011-05-20 04:05:51,359 - INFO - Processed 83000000 reads so far
2011-05-20 04:06:01,845 - INFO - Processed 83100000 reads so far
2011-05-20 04:06:12,817 - INFO - Processed 83200000 reads so far
2011-05-20 04:06:22,658 - INFO - Processed 83300000 reads so far
2011-05-20 04:06:34,605 - INFO - Processed 83400000 reads so far
2011-05-20 04:06:45,718 - INFO - Processed 83500000 reads so far
2011-05-20 04:06:48,203 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:62990103-83010103
2011-05-20 04:06:57,078 - INFO - Processed 83600000 reads so far
2011-05-20 04:07:08,123 - INFO - Processed 83700000 reads so far
2011-05-20 04:07:21,222 - INFO - Processed 83800000 reads so far
2011-05-20 04:07:32,045 - INFO - Processed 83900000 reads so far
2011-05-20 04:07:43,037 - INFO - Processed 84000000 reads so far
2011-05-20 04:07:53,773 - INFO - Processed 84100000 reads so far
2011-05-20 04:08:03,205 - INFO - Processed 84200000 reads so far
2011-05-20 04:08:12,555 - INFO - Processed 84300000 reads so far
2011-05-20 04:08:21,771 - INFO - Processed 84400000 reads so far
2011-05-20 04:08:32,272 - INFO - Processed 84500000 reads so far
2011-05-20 04:08:41,210 - INFO - Processed 84600000 reads so far
2011-05-20 04:08:52,841 - INFO - Processed 84700000 reads so far
2011-05-20 04:09:01,825 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:82990158-103010158
2011-05-20 04:09:03,634 - INFO - Processed 84800000 reads so far
2011-05-20 04:09:13,229 - INFO - Processed 84900000 reads so far
2011-05-20 04:09:22,425 - INFO - Processed 85000000 reads so far
2011-05-20 04:09:33,009 - INFO - Processed 85100000 reads so far
2011-05-20 04:09:44,372 - INFO - Processed 85200000 reads so far
2011-05-20 04:09:54,638 - INFO - Processed 85300000 reads so far
2011-05-20 04:10:05,129 - INFO - Processed 85400000 reads so far
2011-05-20 04:10:15,721 - INFO - Processed 85500000 reads so far
2011-05-20 04:10:27,052 - INFO - Processed 85600000 reads so far
2011-05-20 04:10:39,164 - INFO - Processed 85700000 reads so far
2011-05-20 04:10:48,518 - INFO - Processed 85800000 reads so far
2011-05-20 04:10:57,260 - INFO - Processed 85900000 reads so far
2011-05-20 04:11:07,451 - INFO - Processed 86000000 reads so far
2011-05-20 04:11:17,814 - INFO - Processed 86100000 reads so far
2011-05-20 04:11:26,684 - INFO - Processed 86200000 reads so far
2011-05-20 04:11:36,153 - INFO - Processed 86300000 reads so far
2011-05-20 04:11:47,418 - INFO - Processed 86400000 reads so far
2011-05-20 04:11:56,648 - INFO - Processed 86500000 reads so far
2011-05-20 04:12:05,723 - INFO - Processed 86600000 reads so far
2011-05-20 04:12:16,152 - INFO - Processed 86700000 reads so far
2011-05-20 04:12:27,848 - INFO - Processed 86800000 reads so far
2011-05-20 04:12:36,835 - INFO - Processed 86900000 reads so far
2011-05-20 04:12:47,011 - INFO - Processed 87000000 reads so far
2011-05-20 04:12:56,080 - INFO - Processed 87100000 reads so far
2011-05-20 04:13:03,436 - INFO - Processed 87200000 reads so far
2011-05-20 04:13:12,394 - INFO - Processed 87300000 reads so far
2011-05-20 04:13:19,991 - INFO - Processed 87400000 reads so far
2011-05-20 04:13:26,678 - INFO - Processed 87500000 reads so far
2011-05-20 04:13:35,292 - INFO - Processed 87600000 reads so far
2011-05-20 04:13:43,311 - INFO - Processed 87700000 reads so far
2011-05-20 04:13:51,268 - INFO - Processed 87800000 reads so far
2011-05-20 04:14:00,482 - INFO - Processed 87900000 reads so far
2011-05-20 04:14:11,023 - INFO - Processed 88000000 reads so far
2011-05-20 04:14:20,729 - INFO - Processed 88100000 reads so far
2011-05-20 04:14:30,624 - INFO - Processed 88200000 reads so far
2011-05-20 04:14:39,036 - INFO - Processed 88300000 reads so far
2011-05-20 04:14:47,917 - INFO - Processed 88400000 reads so far
2011-05-20 04:14:56,215 - INFO - Processed 88500000 reads so far
2011-05-20 04:15:03,288 - INFO - Processed 88600000 reads so far
2011-05-20 04:15:12,796 - INFO - Processed 88700000 reads so far
2011-05-20 04:15:21,887 - INFO - Processed 88800000 reads so far
2011-05-20 04:15:30,186 - INFO - Processed 88900000 reads so far
2011-05-20 04:15:36,556 - INFO - Processed 89000000 reads so far
2011-05-20 04:15:45,614 - INFO - Processed 89100000 reads so far
2011-05-20 04:15:54,202 - INFO - Processed 89200000 reads so far
2011-05-20 04:16:01,803 - INFO - Processed 89300000 reads so far
2011-05-20 04:16:09,405 - INFO - Processed 89400000 reads so far
2011-05-20 04:16:16,070 - INFO - Processed 89500000 reads so far
2011-05-20 04:16:22,247 - INFO - Processed 89600000 reads so far
2011-05-20 04:16:33,467 - INFO - Processed 89700000 reads so far
2011-05-20 04:16:39,047 - INFO - Processed 89800000 reads so far
2011-05-20 04:16:48,545 - INFO - Processed 89900000 reads so far
2011-05-20 04:16:57,883 - INFO - Processed 90000000 reads so far
2011-05-20 04:17:04,592 - INFO - Processed 90100000 reads so far
2011-05-20 04:17:14,064 - INFO - Processed 90200000 reads so far
2011-05-20 04:17:21,229 - INFO - Processed 90300000 reads so far
2011-05-20 04:17:27,975 - INFO - Processed 90400000 reads so far
2011-05-20 04:17:35,585 - INFO - Processed 90500000 reads so far
2011-05-20 04:17:41,926 - INFO - Processed 90600000 reads so far
2011-05-20 04:17:50,176 - INFO - Processed 90700000 reads so far
2011-05-20 04:17:56,767 - INFO - Processed 90800000 reads so far
2011-05-20 04:18:05,783 - INFO - Processed 90900000 reads so far
2011-05-20 04:18:12,325 - INFO - Processed 91000000 reads so far
2011-05-20 04:18:20,986 - INFO - Processed 91100000 reads so far
2011-05-20 04:18:27,719 - INFO - Processed 91200000 reads so far
2011-05-20 04:18:34,686 - INFO - Processed 91300000 reads so far
2011-05-20 04:18:41,611 - INFO - Processed 91400000 reads so far
2011-05-20 04:18:48,322 - INFO - Processed 91500000 reads so far
2011-05-20 04:18:54,355 - INFO - Processed 91600000 reads so far
2011-05-20 04:18:59,752 - INFO - Processed 91700000 reads so far
2011-05-20 04:19:05,374 - INFO - Processed 91800000 reads so far
2011-05-20 04:19:12,951 - INFO - Processed 91900000 reads so far
2011-05-20 04:19:18,451 - INFO - Processed 92000000 reads so far
2011-05-20 04:19:24,297 - INFO - Processed 92100000 reads so far
2011-05-20 04:19:33,112 - INFO - Processed 92200000 reads so far
2011-05-20 04:19:40,398 - INFO - Processed 92300000 reads so far
2011-05-20 04:19:45,850 - INFO - Processed 92400000 reads so far
2011-05-20 04:19:53,300 - INFO - Processed 92500000 reads so far
2011-05-20 04:20:01,530 - INFO - Processed 92600000 reads so far
2011-05-20 04:20:09,878 - INFO - Processed 92700000 reads so far
2011-05-20 04:20:18,833 - INFO - Processed 92800000 reads so far
2011-05-20 04:20:26,816 - INFO - Processed 92900000 reads so far
2011-05-20 04:20:35,234 - INFO - Processed 93000000 reads so far
2011-05-20 04:20:42,162 - INFO - Processed 93100000 reads so far
2011-05-20 04:20:50,728 - INFO - Processed 93200000 reads so far
2011-05-20 04:20:56,373 - INFO - Processed 93300000 reads so far
2011-05-20 04:21:02,988 - INFO - Processed 93400000 reads so far
2011-05-20 04:21:08,975 - INFO - Processed 93500000 reads so far
2011-05-20 04:21:14,728 - INFO - Processed 93600000 reads so far
2011-05-20 04:21:22,662 - INFO - Processed 93700000 reads so far
2011-05-20 04:21:30,621 - INFO - Processed 93800000 reads so far
2011-05-20 04:21:38,944 - INFO - Processed 93900000 reads so far
2011-05-20 04:21:46,489 - INFO - Processed 94000000 reads so far
2011-05-20 04:21:54,447 - INFO - Processed 94100000 reads so far
2011-05-20 04:22:00,070 - INFO - Processed 94200000 reads so far
2011-05-20 04:22:07,566 - INFO - Processed 94300000 reads so far
2011-05-20 04:22:14,337 - INFO - Processed 94400000 reads so far
2011-05-20 04:22:20,649 - INFO - Processed 94500000 reads so far
2011-05-20 04:22:28,719 - INFO - Processed 94600000 reads so far
2011-05-20 04:22:37,472 - INFO - Processed 94700000 reads so far
2011-05-20 04:22:43,440 - INFO - Processed 94800000 reads so far
2011-05-20 04:22:49,097 - INFO - Processed 94900000 reads so far
2011-05-20 04:22:55,324 - INFO - Processed 95000000 reads so far
2011-05-20 04:23:02,286 - INFO - Processed 95100000 reads so far
2011-05-20 04:23:09,575 - INFO - Processed 95200000 reads so far
2011-05-20 04:23:15,426 - INFO - Processed 95300000 reads so far
2011-05-20 04:23:21,686 - INFO - Processed 95400000 reads so far
2011-05-20 04:23:27,511 - INFO - Processed 95500000 reads so far
2011-05-20 04:23:34,287 - INFO - Processed 95600000 reads so far
2011-05-20 04:23:42,903 - INFO - Processed 95700000 reads so far
2011-05-20 04:23:50,276 - INFO - Processed 95800000 reads so far
2011-05-20 04:23:55,780 - INFO - Processed 95900000 reads so far
2011-05-20 04:24:02,165 - INFO - Processed 96000000 reads so far
2011-05-20 04:24:07,983 - INFO - Processed 96100000 reads so far
2011-05-20 04:24:16,589 - INFO - Processed 96200000 reads so far
2011-05-20 04:24:22,251 - INFO - Processed 96300000 reads so far
2011-05-20 04:24:28,696 - INFO - Processed 96400000 reads so far
2011-05-20 04:24:35,275 - INFO - Processed 96500000 reads so far
2011-05-20 04:24:42,469 - INFO - Processed 96600000 reads so far
2011-05-20 04:24:50,832 - INFO - Processed 96700000 reads so far
2011-05-20 04:24:58,068 - INFO - Processed 96800000 reads so far
2011-05-20 04:25:04,032 - INFO - Processed 96900000 reads so far
2011-05-20 04:25:12,667 - INFO - Processed 97000000 reads so far
2011-05-20 04:25:22,095 - INFO - Processed 97100000 reads so far
2011-05-20 04:25:30,927 - INFO - Processed 97200000 reads so far
2011-05-20 04:25:37,854 - INFO - Processed 97300000 reads so far
2011-05-20 04:25:46,299 - INFO - Processed 97400000 reads so far
2011-05-20 04:25:56,094 - INFO - Processed 97500000 reads so far
2011-05-20 04:26:04,221 - INFO - Processed 97600000 reads so far
2011-05-20 04:26:11,890 - INFO - Processed 97700000 reads so far
2011-05-20 04:26:18,782 - INFO - Processed 97800000 reads so far
2011-05-20 04:26:25,596 - INFO - Processed 97900000 reads so far
2011-05-20 04:26:34,880 - INFO - Processed 98000000 reads so far
2011-05-20 04:26:42,699 - INFO - Processed 98100000 reads so far
2011-05-20 04:26:49,648 - INFO - Processed 98200000 reads so far
2011-05-20 04:26:56,705 - INFO - Processed 98300000 reads so far
2011-05-20 04:27:06,477 - INFO - Processed 98400000 reads so far
2011-05-20 04:27:15,834 - INFO - Processed 98500000 reads so far
2011-05-20 04:27:25,029 - INFO - Processed 98600000 reads so far
2011-05-20 04:27:34,943 - INFO - Processed 98700000 reads so far
2011-05-20 04:27:44,674 - INFO - Processed 98800000 reads so far
2011-05-20 04:27:51,509 - INFO - Processed 98900000 reads so far
2011-05-20 04:28:00,425 - INFO - Processed 99000000 reads so far
2011-05-20 04:28:07,660 - INFO - Processed 99100000 reads so far
2011-05-20 04:28:17,057 - INFO - Processed 99200000 reads so far
2011-05-20 04:28:23,464 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:102990163-123010163
2011-05-20 04:28:24,562 - INFO - Processed 99300000 reads so far
2011-05-20 04:28:32,953 - INFO - Processed 99400000 reads so far
2011-05-20 04:28:43,183 - INFO - Processed 99500000 reads so far
2011-05-20 04:28:53,254 - INFO - Processed 99600000 reads so far
2011-05-20 04:29:02,352 - INFO - Processed 99700000 reads so far
2011-05-20 04:29:10,561 - INFO - Processed 99800000 reads so far
2011-05-20 04:29:19,457 - INFO - Processed 99900000 reads so far
2011-05-20 04:29:28,253 - INFO - Processed 100000000 reads so far
2011-05-20 04:29:36,838 - INFO - Processed 100100000 reads so far
2011-05-20 04:29:44,344 - INFO - Processed 100200000 reads so far
2011-05-20 04:29:52,922 - INFO - Processed 100300000 reads so far
2011-05-20 04:30:01,138 - INFO - Processed 100400000 reads so far
2011-05-20 04:30:09,199 - INFO - Processed 100500000 reads so far
2011-05-20 04:30:14,296 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:122990177-143010177
2011-05-20 04:30:17,483 - INFO - Processed 100600000 reads so far
2011-05-20 04:30:26,152 - INFO - Processed 100700000 reads so far
2011-05-20 04:30:37,557 - INFO - Processed 100800000 reads so far
2011-05-20 04:30:52,586 - INFO - Processed 100900000 reads so far
2011-05-20 04:31:00,287 - INFO - Processed 101000000 reads so far
2011-05-20 04:31:08,981 - INFO - Processed 101100000 reads so far
2011-05-20 04:31:17,432 - INFO - Processed 101200000 reads so far
2011-05-20 04:31:25,741 - INFO - Processed 101300000 reads so far
2011-05-20 04:31:34,710 - INFO - Processed 101400000 reads so far
2011-05-20 04:31:44,128 - INFO - Processed 101500000 reads so far
2011-05-20 04:31:54,220 - INFO - Processed 101600000 reads so far
2011-05-20 04:32:02,359 - INFO - Processed 101700000 reads so far
2011-05-20 04:32:12,109 - INFO - Processed 101800000 reads so far
2011-05-20 04:32:17,355 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:142990186-163010186
2011-05-20 04:32:20,039 - INFO - Processed 101900000 reads so far
2011-05-20 04:32:28,217 - INFO - Processed 102000000 reads so far
2011-05-20 04:32:35,527 - INFO - Processed 102100000 reads so far
2011-05-20 04:32:43,363 - INFO - Processed 102200000 reads so far
2011-05-20 04:32:54,778 - INFO - Processed 102300000 reads so far
2011-05-20 04:33:03,110 - INFO - Processed 102400000 reads so far
2011-05-20 04:33:11,928 - INFO - Processed 102500000 reads so far
2011-05-20 04:33:19,585 - INFO - Processed 102600000 reads so far
2011-05-20 04:33:29,909 - INFO - Processed 102700000 reads so far
2011-05-20 04:33:40,093 - INFO - Processed 102800000 reads so far
2011-05-20 04:33:49,746 - INFO - Processed 102900000 reads so far
2011-05-20 04:33:56,606 - INFO - Processed 103000000 reads so far
2011-05-20 04:34:05,675 - INFO - Processed 103100000 reads so far
2011-05-20 04:34:14,017 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:162990187-183010187
2011-05-20 04:34:14,767 - INFO - Processed 103200000 reads so far
2011-05-20 04:34:26,439 - INFO - Processed 103300000 reads so far
2011-05-20 04:34:36,136 - INFO - Processed 103400000 reads so far
2011-05-20 04:34:44,003 - INFO - Processed 103500000 reads so far
2011-05-20 04:34:51,636 - INFO - Processed 103600000 reads so far
2011-05-20 04:34:59,559 - INFO - Processed 103700000 reads so far
2011-05-20 04:35:07,534 - INFO - Processed 103800000 reads so far
2011-05-20 04:35:15,796 - INFO - Processed 103900000 reads so far
2011-05-20 04:35:25,454 - INFO - Processed 104000000 reads so far
2011-05-20 04:35:34,613 - INFO - Processed 104100000 reads so far
2011-05-20 04:35:44,759 - INFO - Processed 104200000 reads so far
2011-05-20 04:35:54,287 - INFO - Processed 104300000 reads so far
2011-05-20 04:36:03,923 - INFO - Processed 104400000 reads so far
2011-05-20 04:36:09,748 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:2989997-23009997
2011-05-20 04:36:10,449 - INFO - Processed 104500000 reads so far
2011-05-20 04:36:17,969 - INFO - Processed 104600000 reads so far
2011-05-20 04:36:25,541 - INFO - Processed 104700000 reads so far
2011-05-20 04:36:33,895 - INFO - Processed 104800000 reads so far
2011-05-20 04:36:42,561 - INFO - Processed 104900000 reads so far
2011-05-20 04:36:50,547 - INFO - Processed 105000000 reads so far
2011-05-20 04:37:08,760 - INFO - Processed 105100000 reads so far
2011-05-20 04:37:16,557 - INFO - Processed 105200000 reads so far
2011-05-20 04:37:26,007 - INFO - Processed 105300000 reads so far
2011-05-20 04:37:35,761 - INFO - Processed 105400000 reads so far
2011-05-20 04:37:46,066 - INFO - Processed 105500000 reads so far
2011-05-20 04:37:56,548 - INFO - Processed 105600000 reads so far
2011-05-20 04:38:06,784 - INFO - Processed 105700000 reads so far
2011-05-20 04:38:10,249 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:22990008-43010008
2011-05-20 04:38:17,628 - INFO - Processed 105800000 reads so far
2011-05-20 04:38:27,769 - INFO - Processed 105900000 reads so far
2011-05-20 04:38:37,670 - INFO - Processed 106000000 reads so far
2011-05-20 04:38:46,267 - INFO - Processed 106100000 reads so far
2011-05-20 04:38:55,330 - INFO - Processed 106200000 reads so far
2011-05-20 04:39:02,539 - INFO - Processed 106300000 reads so far
2011-05-20 04:39:10,325 - INFO - Processed 106400000 reads so far
2011-05-20 04:39:19,532 - INFO - Processed 106500000 reads so far
2011-05-20 04:39:28,541 - INFO - Processed 106600000 reads so far
2011-05-20 04:39:39,183 - INFO - Processed 106700000 reads so far
2011-05-20 04:39:47,686 - INFO - Processed 106800000 reads so far
2011-05-20 04:39:55,410 - INFO - Processed 106900000 reads so far
2011-05-20 04:40:03,599 - INFO - Processed 107000000 reads so far
2011-05-20 04:40:07,009 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:42990029-63010029
2011-05-20 04:40:12,641 - INFO - Processed 107100000 reads so far
2011-05-20 04:40:20,171 - INFO - Processed 107200000 reads so far
2011-05-20 04:40:27,852 - INFO - Processed 107300000 reads so far
2011-05-20 04:40:36,669 - INFO - Processed 107400000 reads so far
2011-05-20 04:40:45,875 - INFO - Processed 107500000 reads so far
2011-05-20 04:40:54,599 - INFO - Processed 107600000 reads so far
2011-05-20 04:41:03,096 - INFO - Processed 107700000 reads so far
2011-05-20 04:41:11,107 - INFO - Processed 107800000 reads so far
2011-05-20 04:41:18,212 - INFO - Processed 107900000 reads so far
2011-05-20 04:41:25,920 - INFO - Processed 108000000 reads so far
2011-05-20 04:41:33,818 - INFO - Processed 108100000 reads so far
2011-05-20 04:41:42,886 - INFO - Processed 108200000 reads so far
2011-05-20 04:41:51,103 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:62990037-83010037
2011-05-20 04:41:55,184 - INFO - Processed 108300000 reads so far
2011-05-20 04:42:02,344 - INFO - Processed 108400000 reads so far
2011-05-20 04:42:10,409 - INFO - Processed 108500000 reads so far
2011-05-20 04:42:19,969 - INFO - Processed 108600000 reads so far
2011-05-20 04:42:27,608 - INFO - Processed 108700000 reads so far
2011-05-20 04:42:35,784 - INFO - Processed 108800000 reads so far
2011-05-20 04:42:45,310 - INFO - Processed 108900000 reads so far
2011-05-20 04:42:52,843 - INFO - Processed 109000000 reads so far
2011-05-20 04:43:02,199 - INFO - Processed 109100000 reads so far
2011-05-20 04:43:10,172 - INFO - Processed 109200000 reads so far
2011-05-20 04:43:17,699 - INFO - Processed 109300000 reads so far
2011-05-20 04:43:25,559 - INFO - Processed 109400000 reads so far
2011-05-20 04:43:34,156 - INFO - Processed 109500000 reads so far
2011-05-20 04:43:34,180 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:82990044-103010044
2011-05-20 04:43:42,783 - INFO - Processed 109600000 reads so far
2011-05-20 04:43:50,098 - INFO - Processed 109700000 reads so far
2011-05-20 04:43:58,079 - INFO - Processed 109800000 reads so far
2011-05-20 04:44:08,155 - INFO - Processed 109900000 reads so far
2011-05-20 04:44:16,277 - INFO - Processed 110000000 reads so far
2011-05-20 04:44:24,375 - INFO - Processed 110100000 reads so far
2011-05-20 04:44:32,468 - INFO - Processed 110200000 reads so far
2011-05-20 04:44:41,629 - INFO - Processed 110300000 reads so far
2011-05-20 04:44:50,432 - INFO - Processed 110400000 reads so far
2011-05-20 04:44:57,787 - INFO - Processed 110500000 reads so far
2011-05-20 04:45:05,263 - INFO - Processed 110600000 reads so far
2011-05-20 04:45:13,992 - INFO - Processed 110700000 reads so far
2011-05-20 04:45:22,066 - INFO - Processed 110800000 reads so far
2011-05-20 04:45:23,870 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:102990052-123010052
2011-05-20 04:45:30,637 - INFO - Processed 110900000 reads so far
2011-05-20 04:45:40,851 - INFO - Processed 111000000 reads so far
2011-05-20 04:45:50,658 - INFO - Processed 111100000 reads so far
2011-05-20 04:45:58,083 - INFO - Processed 111200000 reads so far
2011-05-20 04:46:06,320 - INFO - Processed 111300000 reads so far
2011-05-20 04:46:14,472 - INFO - Processed 111400000 reads so far
2011-05-20 04:46:26,823 - INFO - Processed 111500000 reads so far
2011-05-20 04:46:37,949 - INFO - Processed 111600000 reads so far
2011-05-20 04:46:46,436 - INFO - Processed 111700000 reads so far
2011-05-20 04:46:54,385 - INFO - Processed 111800000 reads so far
2011-05-20 04:47:04,015 - INFO - Processed 111900000 reads so far
2011-05-20 04:47:11,788 - INFO - Processed 112000000 reads so far
2011-05-20 04:47:20,331 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:122990064-143010064
2011-05-20 04:47:21,154 - INFO - Processed 112100000 reads so far
2011-05-20 04:47:30,645 - INFO - Processed 112200000 reads so far
2011-05-20 04:47:42,961 - INFO - Processed 112300000 reads so far
2011-05-20 04:47:52,774 - INFO - Processed 112400000 reads so far
2011-05-20 04:48:02,188 - INFO - Processed 112500000 reads so far
2011-05-20 04:48:11,016 - INFO - Processed 112600000 reads so far
2011-05-20 04:48:19,698 - INFO - Processed 112700000 reads so far
2011-05-20 04:48:27,813 - INFO - Processed 112800000 reads so far
2011-05-20 04:48:36,062 - INFO - Processed 112900000 reads so far
2011-05-20 04:48:44,001 - INFO - Processed 113000000 reads so far
2011-05-20 04:48:52,485 - INFO - Processed 113100000 reads so far
2011-05-20 04:49:01,588 - INFO - Processed 113200000 reads so far
2011-05-20 04:49:11,037 - INFO - Processed 113300000 reads so far
2011-05-20 04:49:16,295 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:142990073-163010073
2011-05-20 04:49:19,216 - INFO - Processed 113400000 reads so far
2011-05-20 04:49:27,182 - INFO - Processed 113500000 reads so far
2011-05-20 04:49:35,807 - INFO - Processed 113600000 reads so far
2011-05-20 04:49:43,784 - INFO - Processed 113700000 reads so far
2011-05-20 04:49:51,275 - INFO - Processed 113800000 reads so far
2011-05-20 04:49:59,824 - INFO - Processed 113900000 reads so far
2011-05-20 04:50:09,652 - INFO - Processed 114000000 reads so far
2011-05-20 04:50:17,420 - INFO - Processed 114100000 reads so far
2011-05-20 04:50:25,350 - INFO - Processed 114200000 reads so far
2011-05-20 04:50:33,303 - INFO - Processed 114300000 reads so far
2011-05-20 04:50:42,184 - INFO - Processed 114400000 reads so far
2011-05-20 04:50:45,626 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3_random:0-20010078
2011-05-20 04:50:45,726 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:2989987-23009987
2011-05-20 04:50:49,810 - INFO - Processed 114500000 reads so far
2011-05-20 04:50:57,931 - INFO - Processed 114600000 reads so far
2011-05-20 04:51:07,108 - INFO - Processed 114700000 reads so far
2011-05-20 04:51:16,343 - INFO - Processed 114800000 reads so far
2011-05-20 04:51:24,724 - INFO - Processed 114900000 reads so far
2011-05-20 04:51:32,631 - INFO - Processed 115000000 reads so far
2011-05-20 04:51:41,266 - INFO - Processed 115100000 reads so far
2011-05-20 04:51:50,123 - INFO - Processed 115200000 reads so far
2011-05-20 04:51:59,033 - INFO - Processed 115300000 reads so far
2011-05-20 04:52:07,858 - INFO - Processed 115400000 reads so far
2011-05-20 04:52:16,508 - INFO - Processed 115500000 reads so far
2011-05-20 04:52:25,991 - INFO - Processed 115600000 reads so far
2011-05-20 04:52:34,211 - INFO - Processed 115700000 reads so far
2011-05-20 04:52:37,835 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:22989989-43009989
2011-05-20 04:52:43,265 - INFO - Processed 115800000 reads so far
2011-05-20 04:52:52,182 - INFO - Processed 115900000 reads so far
2011-05-20 04:53:02,071 - INFO - Processed 116000000 reads so far
2011-05-20 04:53:11,654 - INFO - Processed 116100000 reads so far
2011-05-20 04:53:19,726 - INFO - Processed 116200000 reads so far
2011-05-20 04:53:29,133 - INFO - Processed 116300000 reads so far
2011-05-20 04:53:37,054 - INFO - Processed 116400000 reads so far
2011-05-20 04:53:45,369 - INFO - Processed 116500000 reads so far
2011-05-20 04:53:53,472 - INFO - Processed 116600000 reads so far
2011-05-20 04:54:02,011 - INFO - Processed 116700000 reads so far
2011-05-20 04:54:11,371 - INFO - Processed 116800000 reads so far
2011-05-20 04:54:19,808 - INFO - Processed 116900000 reads so far
2011-05-20 04:54:26,005 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:42990040-63010040
2011-05-20 04:54:28,225 - INFO - Processed 117000000 reads so far
2011-05-20 04:54:36,585 - INFO - Processed 117100000 reads so far
2011-05-20 04:54:44,972 - INFO - Processed 117200000 reads so far
2011-05-20 04:54:53,526 - INFO - Processed 117300000 reads so far
2011-05-20 04:55:01,707 - INFO - Processed 117400000 reads so far
2011-05-20 04:55:10,420 - INFO - Processed 117500000 reads so far
2011-05-20 04:55:18,221 - INFO - Processed 117600000 reads so far
2011-05-20 04:55:26,664 - INFO - Processed 117700000 reads so far
2011-05-20 04:55:34,720 - INFO - Processed 117800000 reads so far
2011-05-20 04:55:43,437 - INFO - Processed 117900000 reads so far
2011-05-20 04:55:51,593 - INFO - Processed 118000000 reads so far
2011-05-20 04:56:01,138 - INFO - Processed 118100000 reads so far
2011-05-20 04:56:09,868 - INFO - Processed 118200000 reads so far
2011-05-20 04:56:18,117 - INFO - Processed 118300000 reads so far
2011-05-20 04:56:19,528 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:62990060-83010060
2011-05-20 04:56:26,778 - INFO - Processed 118400000 reads so far
2011-05-20 04:56:34,870 - INFO - Processed 118500000 reads so far
2011-05-20 04:56:42,973 - INFO - Processed 118600000 reads so far
2011-05-20 04:56:51,797 - INFO - Processed 118700000 reads so far
2011-05-20 04:57:00,488 - INFO - Processed 118800000 reads so far
2011-05-20 04:57:10,647 - INFO - Processed 118900000 reads so far
2011-05-20 04:57:18,795 - INFO - Processed 119000000 reads so far
2011-05-20 04:57:28,176 - INFO - Processed 119100000 reads so far
2011-05-20 04:57:36,553 - INFO - Processed 119200000 reads so far
2011-05-20 04:57:44,773 - INFO - Processed 119300000 reads so far
2011-05-20 04:57:53,985 - INFO - Processed 119400000 reads so far
2011-05-20 04:58:01,959 - INFO - Processed 119500000 reads so far
2011-05-20 04:58:11,728 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:82990071-103010071
2011-05-20 04:58:12,835 - INFO - Processed 119600000 reads so far
2011-05-20 04:58:21,680 - INFO - Processed 119700000 reads so far
2011-05-20 04:58:30,679 - INFO - Processed 119800000 reads so far
2011-05-20 04:58:38,389 - INFO - Processed 119900000 reads so far
2011-05-20 04:58:45,740 - INFO - Processed 120000000 reads so far
2011-05-20 04:58:53,521 - INFO - Processed 120100000 reads so far
2011-05-20 04:59:01,644 - INFO - Processed 120200000 reads so far
2011-05-20 04:59:10,199 - INFO - Processed 120300000 reads so far
2011-05-20 04:59:18,842 - INFO - Processed 120400000 reads so far
2011-05-20 04:59:26,711 - INFO - Processed 120500000 reads so far
2011-05-20 04:59:34,658 - INFO - Processed 120600000 reads so far
2011-05-20 04:59:42,379 - INFO - Processed 120700000 reads so far
2011-05-20 04:59:51,178 - INFO - Processed 120800000 reads so far
2011-05-20 04:59:58,461 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:102990082-123010082
2011-05-20 05:00:00,194 - INFO - Processed 120900000 reads so far
2011-05-20 05:00:07,976 - INFO - Processed 121000000 reads so far
2011-05-20 05:00:17,214 - INFO - Processed 121100000 reads so far
2011-05-20 05:00:24,754 - INFO - Processed 121200000 reads so far
2011-05-20 05:00:32,917 - INFO - Processed 121300000 reads so far
2011-05-20 05:00:41,622 - INFO - Processed 121400000 reads so far
2011-05-20 05:00:50,020 - INFO - Processed 121500000 reads so far
2011-05-20 05:00:58,415 - INFO - Processed 121600000 reads so far
2011-05-20 05:01:06,772 - INFO - Processed 121700000 reads so far
2011-05-20 05:01:15,913 - INFO - Processed 121800000 reads so far
2011-05-20 05:01:25,142 - INFO - Processed 121900000 reads so far
2011-05-20 05:01:37,211 - INFO - Processed 122000000 reads so far
2011-05-20 05:01:45,254 - INFO - Processed 122100000 reads so far
2011-05-20 05:01:45,274 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:122990095-143010095
2011-05-20 05:01:54,145 - INFO - Processed 122200000 reads so far
2011-05-20 05:02:03,234 - INFO - Processed 122300000 reads so far
2011-05-20 05:02:12,827 - INFO - Processed 122400000 reads so far
2011-05-20 05:02:21,794 - INFO - Processed 122500000 reads so far
2011-05-20 05:02:30,440 - INFO - Processed 122600000 reads so far
2011-05-20 05:02:39,942 - INFO - Processed 122700000 reads so far
2011-05-20 05:02:48,481 - INFO - Processed 122800000 reads so far
2011-05-20 05:02:56,211 - INFO - Processed 122900000 reads so far
2011-05-20 05:03:05,333 - INFO - Processed 123000000 reads so far
2011-05-20 05:03:13,436 - INFO - Processed 123100000 reads so far
2011-05-20 05:03:21,964 - INFO - Processed 123200000 reads so far
2011-05-20 05:03:30,097 - INFO - Processed 123300000 reads so far
2011-05-20 05:03:37,934 - INFO - Processed 123400000 reads so far
2011-05-20 05:03:38,563 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:142990109-163010109
2011-05-20 05:03:46,306 - INFO - Processed 123500000 reads so far
2011-05-20 05:03:54,153 - INFO - Processed 123600000 reads so far
2011-05-20 05:04:01,717 - INFO - Processed 123700000 reads so far
2011-05-20 05:04:09,265 - INFO - Processed 123800000 reads so far
2011-05-20 05:04:17,737 - INFO - Processed 123900000 reads so far
2011-05-20 05:04:25,994 - INFO - Processed 124000000 reads so far
2011-05-20 05:04:35,238 - INFO - Processed 124100000 reads so far
2011-05-20 05:04:45,267 - INFO - Processed 124200000 reads so far
2011-05-20 05:04:55,158 - INFO - Processed 124300000 reads so far
2011-05-20 05:05:03,478 - INFO - Processed 124400000 reads so far
2011-05-20 05:05:10,512 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4_random:0-20010007
2011-05-20 05:05:11,684 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:2990020-23010020
2011-05-20 05:05:11,924 - INFO - Processed 124500000 reads so far
2011-05-20 05:05:20,807 - INFO - Processed 124600000 reads so far
2011-05-20 05:05:29,113 - INFO - Processed 124700000 reads so far
2011-05-20 05:05:36,880 - INFO - Processed 124800000 reads so far
2011-05-20 05:05:45,062 - INFO - Processed 124900000 reads so far
2011-05-20 05:05:54,372 - INFO - Processed 125000000 reads so far
2011-05-20 05:06:02,413 - INFO - Processed 125100000 reads so far
2011-05-20 05:06:11,336 - INFO - Processed 125200000 reads so far
2011-05-20 05:06:19,855 - INFO - Processed 125300000 reads so far
2011-05-20 05:06:27,837 - INFO - Processed 125400000 reads so far
2011-05-20 05:06:37,404 - INFO - Processed 125500000 reads so far
2011-05-20 05:06:45,071 - INFO - Processed 125600000 reads so far
2011-05-20 05:06:53,804 - INFO - Processed 125700000 reads so far
2011-05-20 05:06:59,466 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:22990024-43010024
2011-05-20 05:07:01,700 - INFO - Processed 125800000 reads so far
2011-05-20 05:07:09,684 - INFO - Processed 125900000 reads so far
2011-05-20 05:07:17,176 - INFO - Processed 126000000 reads so far
2011-05-20 05:07:25,064 - INFO - Processed 126100000 reads so far
2011-05-20 05:07:33,993 - INFO - Processed 126200000 reads so far
2011-05-20 05:07:43,266 - INFO - Processed 126300000 reads so far
2011-05-20 05:07:51,092 - INFO - Processed 126400000 reads so far
2011-05-20 05:07:59,491 - INFO - Processed 126500000 reads so far
2011-05-20 05:08:07,162 - INFO - Processed 126600000 reads so far
2011-05-20 05:08:15,350 - INFO - Processed 126700000 reads so far
2011-05-20 05:08:23,699 - INFO - Processed 126800000 reads so far
2011-05-20 05:08:32,725 - INFO - Processed 126900000 reads so far
2011-05-20 05:08:41,642 - INFO - Processed 127000000 reads so far
2011-05-20 05:08:49,483 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:42990033-63010033
2011-05-20 05:08:51,213 - INFO - Processed 127100000 reads so far
2011-05-20 05:08:59,705 - INFO - Processed 127200000 reads so far
2011-05-20 05:09:07,288 - INFO - Processed 127300000 reads so far
2011-05-20 05:09:17,413 - INFO - Processed 127400000 reads so far
2011-05-20 05:09:26,283 - INFO - Processed 127500000 reads so far
2011-05-20 05:09:34,660 - INFO - Processed 127600000 reads so far
2011-05-20 05:09:43,137 - INFO - Processed 127700000 reads so far
2011-05-20 05:09:51,108 - INFO - Processed 127800000 reads so far
2011-05-20 05:10:04,957 - INFO - Processed 127900000 reads so far
2011-05-20 05:10:13,572 - INFO - Processed 128000000 reads so far
2011-05-20 05:10:22,910 - INFO - Processed 128100000 reads so far
2011-05-20 05:10:33,242 - INFO - Processed 128200000 reads so far
2011-05-20 05:10:41,906 - INFO - Processed 128300000 reads so far
2011-05-20 05:10:42,692 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:62990041-83010041
2011-05-20 05:11:00,437 - INFO - Processed 128400000 reads so far
2011-05-20 05:11:13,009 - INFO - Processed 128500000 reads so far
2011-05-20 05:11:27,593 - INFO - Processed 128600000 reads so far
2011-05-20 05:11:40,302 - INFO - Processed 128700000 reads so far
2011-05-20 05:11:51,460 - INFO - Processed 128800000 reads so far
2011-05-20 05:12:03,811 - INFO - Processed 128900000 reads so far
2011-05-20 05:12:16,011 - INFO - Processed 129000000 reads so far
2011-05-20 05:12:26,956 - INFO - Processed 129100000 reads so far
2011-05-20 05:12:38,031 - INFO - Processed 129200000 reads so far
2011-05-20 05:12:49,043 - INFO - Processed 129300000 reads so far
2011-05-20 05:13:00,001 - INFO - Processed 129400000 reads so far
2011-05-20 05:13:10,969 - INFO - Processed 129500000 reads so far
2011-05-20 05:13:17,905 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:82990102-103010102
2011-05-20 05:13:22,556 - INFO - Processed 129600000 reads so far
2011-05-20 05:13:33,560 - INFO - Processed 129700000 reads so far
2011-05-20 05:13:44,652 - INFO - Processed 129800000 reads so far
2011-05-20 05:13:55,728 - INFO - Processed 129900000 reads so far
2011-05-20 05:14:06,890 - INFO - Processed 130000000 reads so far
2011-05-20 05:14:18,066 - INFO - Processed 130100000 reads so far
2011-05-20 05:14:29,087 - INFO - Processed 130200000 reads so far
2011-05-20 05:14:40,145 - INFO - Processed 130300000 reads so far
2011-05-20 05:14:51,757 - INFO - Processed 130400000 reads so far
2011-05-20 05:15:02,748 - INFO - Processed 130500000 reads so far
2011-05-20 05:15:14,767 - INFO - Processed 130600000 reads so far
2011-05-20 05:15:25,916 - INFO - Processed 130700000 reads so far
2011-05-20 05:15:32,800 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:102990112-123010112
2011-05-20 05:15:38,275 - INFO - Processed 130800000 reads so far
2011-05-20 05:15:49,946 - INFO - Processed 130900000 reads so far
2011-05-20 05:16:01,024 - INFO - Processed 131000000 reads so far
2011-05-20 05:16:12,076 - INFO - Processed 131100000 reads so far
2011-05-20 05:16:26,174 - INFO - Processed 131200000 reads so far
2011-05-20 05:16:38,539 - INFO - Processed 131300000 reads so far
2011-05-20 05:16:51,350 - INFO - Processed 131400000 reads so far
2011-05-20 05:17:03,834 - INFO - Processed 131500000 reads so far
2011-05-20 05:17:15,404 - INFO - Processed 131600000 reads so far
2011-05-20 05:17:26,493 - INFO - Processed 131700000 reads so far
2011-05-20 05:17:38,160 - INFO - Processed 131800000 reads so far
2011-05-20 05:17:49,100 - INFO - Processed 131900000 reads so far
2011-05-20 05:18:01,255 - INFO - Processed 132000000 reads so far
2011-05-20 05:18:12,220 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:122990126-143010126
2011-05-20 05:18:14,368 - INFO - Processed 132100000 reads so far
2011-05-20 05:18:25,829 - INFO - Processed 132200000 reads so far
2011-05-20 05:18:36,976 - INFO - Processed 132300000 reads so far
2011-05-20 05:18:47,905 - INFO - Processed 132400000 reads so far
2011-05-20 05:18:59,340 - INFO - Processed 132500000 reads so far
2011-05-20 05:19:10,471 - INFO - Processed 132600000 reads so far
2011-05-20 05:19:22,180 - INFO - Processed 132700000 reads so far
2011-05-20 05:19:33,073 - INFO - Processed 132800000 reads so far
2011-05-20 05:19:44,636 - INFO - Processed 132900000 reads so far
2011-05-20 05:19:55,852 - INFO - Processed 133000000 reads so far
2011-05-20 05:20:07,334 - INFO - Processed 133100000 reads so far
2011-05-20 05:20:18,826 - INFO - Processed 133200000 reads so far
2011-05-20 05:20:30,466 - INFO - Processed 133300000 reads so far
2011-05-20 05:20:40,752 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:142990147-163010147
2011-05-20 05:20:41,704 - INFO - Processed 133400000 reads so far
2011-05-20 05:20:53,016 - INFO - Processed 133500000 reads so far
2011-05-20 05:21:04,688 - INFO - Processed 133600000 reads so far
2011-05-20 05:21:15,255 - INFO - Processed 133700000 reads so far
2011-05-20 05:21:26,958 - INFO - Processed 133800000 reads so far
2011-05-20 05:21:38,583 - INFO - Processed 133900000 reads so far
2011-05-20 05:21:51,863 - INFO - Processed 134000000 reads so far
2011-05-20 05:21:55,162 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5_random:0-20010134
2011-05-20 05:21:55,529 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:2989979-23009979
2011-05-20 05:22:03,023 - INFO - Processed 134100000 reads so far
2011-05-20 05:22:14,079 - INFO - Processed 134200000 reads so far
2011-05-20 05:22:25,001 - INFO - Processed 134300000 reads so far
2011-05-20 05:22:36,925 - INFO - Processed 134400000 reads so far
2011-05-20 05:22:47,786 - INFO - Processed 134500000 reads so far
2011-05-20 05:22:58,721 - INFO - Processed 134600000 reads so far
2011-05-20 05:23:10,687 - INFO - Processed 134700000 reads so far
2011-05-20 05:23:23,749 - INFO - Processed 134800000 reads so far
2011-05-20 05:23:34,783 - INFO - Processed 134900000 reads so far
2011-05-20 05:23:47,397 - INFO - Processed 135000000 reads so far
2011-05-20 05:23:58,436 - INFO - Processed 135100000 reads so far
2011-05-20 05:24:11,321 - INFO - Processed 135200000 reads so far
2011-05-20 05:24:21,401 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:22989981-43009981
2011-05-20 05:24:23,997 - INFO - Processed 135300000 reads so far
2011-05-20 05:24:34,977 - INFO - Processed 135400000 reads so far
2011-05-20 05:24:45,940 - INFO - Processed 135500000 reads so far
2011-05-20 05:24:56,977 - INFO - Processed 135600000 reads so far
2011-05-20 05:25:08,077 - INFO - Processed 135700000 reads so far
2011-05-20 05:25:19,890 - INFO - Processed 135800000 reads so far
2011-05-20 05:25:30,737 - INFO - Processed 135900000 reads so far
2011-05-20 05:25:43,264 - INFO - Processed 136000000 reads so far
2011-05-20 05:25:54,768 - INFO - Processed 136100000 reads so far
2011-05-20 05:26:05,894 - INFO - Processed 136200000 reads so far
2011-05-20 05:26:17,176 - INFO - Processed 136300000 reads so far
2011-05-20 05:26:28,220 - INFO - Processed 136400000 reads so far
2011-05-20 05:26:39,337 - INFO - Processed 136500000 reads so far
2011-05-20 05:26:47,582 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:42989997-63009997
2011-05-20 05:26:50,767 - INFO - Processed 136600000 reads so far
2011-05-20 05:27:01,828 - INFO - Processed 136700000 reads so far
2011-05-20 05:27:11,799 - INFO - Processed 136800000 reads so far
2011-05-20 05:27:20,881 - INFO - Processed 136900000 reads so far
2011-05-20 05:27:29,393 - INFO - Processed 137000000 reads so far
2011-05-20 05:27:39,754 - INFO - Processed 137100000 reads so far
2011-05-20 05:27:51,871 - INFO - Processed 137200000 reads so far
2011-05-20 05:28:02,662 - INFO - Processed 137300000 reads so far
2011-05-20 05:28:14,387 - INFO - Processed 137400000 reads so far
2011-05-20 05:28:25,768 - INFO - Processed 137500000 reads so far
2011-05-20 05:28:35,286 - INFO - Processed 137600000 reads so far
2011-05-20 05:28:42,406 - INFO - Processed 137700000 reads so far
2011-05-20 05:28:51,453 - INFO - Processed 137800000 reads so far
2011-05-20 05:28:58,055 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:62990006-83010006
2011-05-20 05:29:00,791 - INFO - Processed 137900000 reads so far
2011-05-20 05:29:11,208 - INFO - Processed 138000000 reads so far
2011-05-20 05:29:22,039 - INFO - Processed 138100000 reads so far
2011-05-20 05:29:30,731 - INFO - Processed 138200000 reads so far
2011-05-20 05:29:39,670 - INFO - Processed 138300000 reads so far
2011-05-20 05:29:51,133 - INFO - Processed 138400000 reads so far
2011-05-20 05:29:58,295 - INFO - Processed 138500000 reads so far
2011-05-20 05:30:06,948 - INFO - Processed 138600000 reads so far
2011-05-20 05:30:16,942 - INFO - Processed 138700000 reads so far
2011-05-20 05:30:28,013 - INFO - Processed 138800000 reads so far
2011-05-20 05:30:37,617 - INFO - Processed 138900000 reads so far
2011-05-20 05:30:46,752 - INFO - Processed 139000000 reads so far
2011-05-20 05:30:54,430 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:82990029-103010029
2011-05-20 05:30:57,481 - INFO - Processed 139100000 reads so far
2011-05-20 05:31:04,985 - INFO - Processed 139200000 reads so far
2011-05-20 05:31:13,649 - INFO - Processed 139300000 reads so far
2011-05-20 05:31:21,592 - INFO - Processed 139400000 reads so far
2011-05-20 05:31:31,782 - INFO - Processed 139500000 reads so far
2011-05-20 05:31:40,251 - INFO - Processed 139600000 reads so far
2011-05-20 05:31:50,011 - INFO - Processed 139700000 reads so far
2011-05-20 05:32:01,728 - INFO - Processed 139800000 reads so far
2011-05-20 05:32:16,531 - INFO - Processed 139900000 reads so far
2011-05-20 05:32:28,520 - INFO - Processed 140000000 reads so far
2011-05-20 05:32:42,014 - INFO - Processed 140100000 reads so far
2011-05-20 05:32:53,119 - INFO - Processed 140200000 reads so far
2011-05-20 05:33:06,526 - INFO - Processed 140300000 reads so far
2011-05-20 05:33:17,588 - INFO - Processed 140400000 reads so far
2011-05-20 05:33:18,514 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:102990030-123010030
2011-05-20 05:33:28,259 - INFO - Processed 140500000 reads so far
2011-05-20 05:33:37,959 - INFO - Processed 140600000 reads so far
2011-05-20 05:33:48,362 - INFO - Processed 140700000 reads so far
2011-05-20 05:33:58,462 - INFO - Processed 140800000 reads so far
2011-05-20 05:34:08,014 - INFO - Processed 140900000 reads so far
2011-05-20 05:34:17,841 - INFO - Processed 141000000 reads so far
2011-05-20 05:34:27,548 - INFO - Processed 141100000 reads so far
2011-05-20 05:34:37,478 - INFO - Processed 141200000 reads so far
2011-05-20 05:34:47,451 - INFO - Processed 141300000 reads so far
2011-05-20 05:34:57,166 - INFO - Processed 141400000 reads so far
2011-05-20 05:35:06,931 - INFO - Processed 141500000 reads so far
2011-05-20 05:35:17,100 - INFO - Processed 141600000 reads so far
2011-05-20 05:35:26,801 - INFO - Processed 141700000 reads so far
2011-05-20 05:35:36,405 - INFO - Processed 141800000 reads so far
2011-05-20 05:35:47,035 - INFO - Processed 141900000 reads so far
2011-05-20 05:35:59,169 - INFO - Processed 142000000 reads so far
2011-05-20 05:36:10,141 - INFO - Processed 142100000 reads so far
2011-05-20 05:36:21,207 - INFO - Processed 142200000 reads so far
2011-05-20 05:36:32,499 - INFO - Processed 142300000 reads so far
2011-05-20 05:36:43,314 - INFO - Processed 142400000 reads so far
2011-05-20 05:36:56,528 - INFO - Processed 142500000 reads so far
2011-05-20 05:37:07,600 - INFO - Processed 142600000 reads so far
2011-05-20 05:37:20,587 - INFO - Processed 142700000 reads so far
2011-05-20 05:37:31,440 - INFO - Processed 142800000 reads so far
2011-05-20 05:37:42,509 - INFO - Processed 142900000 reads so far
2011-05-20 05:37:53,959 - INFO - Processed 143000000 reads so far
2011-05-20 05:38:02,846 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:122990044-143010044
2011-05-20 05:38:05,361 - INFO - Processed 143100000 reads so far
2011-05-20 05:38:16,823 - INFO - Processed 143200000 reads so far
2011-05-20 05:38:27,993 - INFO - Processed 143300000 reads so far
2011-05-20 05:38:39,620 - INFO - Processed 143400000 reads so far
2011-05-20 05:38:50,674 - INFO - Processed 143500000 reads so far
2011-05-20 05:39:03,037 - INFO - Processed 143600000 reads so far
2011-05-20 05:39:13,235 - INFO - Processed 143700000 reads so far
2011-05-20 05:39:23,793 - INFO - Processed 143800000 reads so far
2011-05-20 05:39:35,508 - INFO - Processed 143900000 reads so far
2011-05-20 05:39:46,264 - INFO - Processed 144000000 reads so far
2011-05-20 05:39:57,177 - INFO - Processed 144100000 reads so far
2011-05-20 05:40:09,094 - INFO - Processed 144200000 reads so far
2011-05-20 05:40:20,044 - INFO - Processed 144300000 reads so far
2011-05-20 05:40:31,179 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:142990045-163010045
2011-05-20 05:40:31,312 - INFO - Processed 144400000 reads so far
2011-05-20 05:40:43,978 - INFO - Processed 144500000 reads so far
2011-05-20 05:40:54,990 - INFO - Processed 144600000 reads so far
2011-05-20 05:41:06,152 - INFO - Processed 144700000 reads so far
2011-05-20 05:41:17,054 - INFO - Processed 144800000 reads so far
2011-05-20 05:41:20,251 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:2990011-23010011
2011-05-20 05:41:26,927 - INFO - Processed 144900000 reads so far
2011-05-20 05:41:37,690 - INFO - Processed 145000000 reads so far
2011-05-20 05:41:48,143 - INFO - Processed 145100000 reads so far
2011-05-20 05:42:00,229 - INFO - Processed 145200000 reads so far
2011-05-20 05:42:11,976 - INFO - Processed 145300000 reads so far
2011-05-20 05:42:27,179 - INFO - Processed 145400000 reads so far
2011-05-20 05:42:35,675 - INFO - Processed 145500000 reads so far
2011-05-20 05:42:43,584 - INFO - Processed 145600000 reads so far
2011-05-20 05:42:52,015 - INFO - Processed 145700000 reads so far
2011-05-20 05:42:59,988 - INFO - Processed 145800000 reads so far
2011-05-20 05:43:08,583 - INFO - Processed 145900000 reads so far
2011-05-20 05:43:11,867 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:22990016-43010016
2011-05-20 05:43:17,820 - INFO - Processed 146000000 reads so far
2011-05-20 05:43:25,188 - INFO - Processed 146100000 reads so far
2011-05-20 05:43:32,098 - INFO - Processed 146200000 reads so far
2011-05-20 05:43:40,944 - INFO - Processed 146300000 reads so far
2011-05-20 05:43:50,650 - INFO - Processed 146400000 reads so far
2011-05-20 05:43:59,208 - INFO - Processed 146500000 reads so far
2011-05-20 05:44:08,678 - INFO - Processed 146600000 reads so far
2011-05-20 05:44:16,869 - INFO - Processed 146700000 reads so far
2011-05-20 05:44:25,212 - INFO - Processed 146800000 reads so far
2011-05-20 05:44:34,423 - INFO - Processed 146900000 reads so far
2011-05-20 05:44:35,677 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:46348072-66368072
2011-05-20 05:44:45,394 - INFO - Processed 147000000 reads so far
2011-05-20 05:44:53,742 - INFO - Processed 147100000 reads so far
2011-05-20 05:45:02,122 - INFO - Processed 147200000 reads so far
2011-05-20 05:45:09,316 - INFO - Processed 147300000 reads so far
2011-05-20 05:45:16,548 - INFO - Processed 147400000 reads so far
2011-05-20 05:45:23,512 - INFO - Processed 147500000 reads so far
2011-05-20 05:45:31,772 - INFO - Processed 147600000 reads so far
2011-05-20 05:45:40,565 - INFO - Processed 147700000 reads so far
2011-05-20 05:45:48,792 - INFO - Processed 147800000 reads so far
2011-05-20 05:45:57,632 - INFO - Processed 147900000 reads so far
2011-05-20 05:46:05,509 - INFO - Processed 148000000 reads so far
2011-05-20 05:46:14,736 - INFO - Processed 148100000 reads so far
2011-05-20 05:46:26,049 - INFO - Processed 148200000 reads so far
2011-05-20 05:46:27,547 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:66348084-86368084
2011-05-20 05:46:37,985 - INFO - Processed 148300000 reads so far
2011-05-20 05:46:46,661 - INFO - Processed 148400000 reads so far
2011-05-20 05:46:55,210 - INFO - Processed 148500000 reads so far
2011-05-20 05:47:04,899 - INFO - Processed 148600000 reads so far
2011-05-20 05:47:13,032 - INFO - Processed 148700000 reads so far
2011-05-20 05:47:22,030 - INFO - Processed 148800000 reads so far
2011-05-20 05:47:31,603 - INFO - Processed 148900000 reads so far
2011-05-20 05:47:41,151 - INFO - Processed 149000000 reads so far
2011-05-20 05:47:51,763 - INFO - Processed 149100000 reads so far
2011-05-20 05:48:06,890 - INFO - Processed 149200000 reads so far
2011-05-20 05:48:20,157 - INFO - Processed 149300000 reads so far
2011-05-20 05:48:28,886 - INFO - Processed 149400000 reads so far
2011-05-20 05:48:40,387 - INFO - Processed 149500000 reads so far
2011-05-20 05:48:42,468 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:86348093-106368093
2011-05-20 05:48:48,455 - INFO - Processed 149600000 reads so far
2011-05-20 05:48:57,433 - INFO - Processed 149700000 reads so far
2011-05-20 05:49:10,825 - INFO - Processed 149800000 reads so far
2011-05-20 05:49:22,010 - INFO - Processed 149900000 reads so far
2011-05-20 05:49:34,656 - INFO - Processed 150000000 reads so far
2011-05-20 05:49:48,054 - INFO - Processed 150100000 reads so far
2011-05-20 05:49:57,104 - INFO - Processed 150200000 reads so far
2011-05-20 05:50:07,649 - INFO - Processed 150300000 reads so far
2011-05-20 05:50:17,723 - INFO - Processed 150400000 reads so far
2011-05-20 05:50:26,476 - INFO - Processed 150500000 reads so far
2011-05-20 05:50:36,626 - INFO - Processed 150600000 reads so far
2011-05-20 05:50:44,204 - INFO - Processed 150700000 reads so far
2011-05-20 05:50:53,070 - INFO - Processed 150800000 reads so far
2011-05-20 05:50:53,959 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:106348126-126368126
2011-05-20 05:51:03,101 - INFO - Processed 150900000 reads so far
2011-05-20 05:51:14,075 - INFO - Processed 151000000 reads so far
2011-05-20 05:51:26,486 - INFO - Processed 151100000 reads so far
2011-05-20 05:51:35,857 - INFO - Processed 151200000 reads so far
2011-05-20 05:51:43,435 - INFO - Processed 151300000 reads so far
2011-05-20 05:51:54,537 - INFO - Processed 151400000 reads so far
2011-05-20 05:52:06,008 - INFO - Processed 151500000 reads so far
2011-05-20 05:52:18,384 - INFO - Processed 151600000 reads so far
2011-05-20 05:52:29,854 - INFO - Processed 151700000 reads so far
2011-05-20 05:52:39,890 - INFO - Processed 151800000 reads so far
2011-05-20 05:52:49,165 - INFO - Processed 151900000 reads so far
2011-05-20 05:52:59,252 - INFO - Processed 152000000 reads so far
2011-05-20 05:53:10,883 - INFO - Processed 152100000 reads so far
2011-05-20 05:53:13,512 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:126348148-146368148
2011-05-20 05:53:20,819 - INFO - Processed 152200000 reads so far
2011-05-20 05:53:31,267 - INFO - Processed 152300000 reads so far
2011-05-20 05:53:39,523 - INFO - Processed 152400000 reads so far
2011-05-20 05:53:52,929 - INFO - Processed 152500000 reads so far
2011-05-20 05:54:00,733 - INFO - Processed 152600000 reads so far
2011-05-20 05:54:11,957 - INFO - Processed 152700000 reads so far
2011-05-20 05:54:23,270 - INFO - Processed 152800000 reads so far
2011-05-20 05:54:34,036 - INFO - Processed 152900000 reads so far
2011-05-20 05:54:44,225 - INFO - Processed 153000000 reads so far
2011-05-20 05:54:55,621 - INFO - Processed 153100000 reads so far
2011-05-20 05:55:04,750 - INFO - Processed 153200000 reads so far
2011-05-20 05:55:15,196 - INFO - Processed 153300000 reads so far
2011-05-20 05:55:24,885 - INFO - Processed 153400000 reads so far
2011-05-20 05:55:32,141 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:146348149-166368149
2011-05-20 05:55:34,316 - INFO - Processed 153500000 reads so far
2011-05-20 05:55:43,168 - INFO - Processed 153600000 reads so far
2011-05-20 05:55:53,242 - INFO - Processed 153700000 reads so far
2011-05-20 05:56:01,994 - INFO - Processed 153800000 reads so far
2011-05-20 05:56:12,829 - INFO - Processed 153900000 reads so far
2011-05-20 05:56:14,294 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7_random:0-20010000
2011-05-20 05:56:15,701 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:2990082-23010082
2011-05-20 05:56:22,707 - INFO - Processed 154000000 reads so far
2011-05-20 05:56:32,067 - INFO - Processed 154100000 reads so far
2011-05-20 05:56:44,768 - INFO - Processed 154200000 reads so far
2011-05-20 05:56:55,097 - INFO - Processed 154300000 reads so far
2011-05-20 05:57:05,427 - INFO - Processed 154400000 reads so far
2011-05-20 05:57:15,647 - INFO - Processed 154500000 reads so far
2011-05-20 05:57:24,632 - INFO - Processed 154600000 reads so far
2011-05-20 05:57:34,568 - INFO - Processed 154700000 reads so far
2011-05-20 05:57:44,099 - INFO - Processed 154800000 reads so far
2011-05-20 05:57:53,121 - INFO - Processed 154900000 reads so far
2011-05-20 05:58:02,010 - INFO - Processed 155000000 reads so far
2011-05-20 05:58:10,656 - INFO - Processed 155100000 reads so far
2011-05-20 05:58:19,517 - INFO - Processed 155200000 reads so far
2011-05-20 05:58:28,056 - INFO - Processed 155300000 reads so far
2011-05-20 05:58:32,247 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:22990103-43010103
2011-05-20 05:58:38,025 - INFO - Processed 155400000 reads so far
2011-05-20 05:58:48,067 - INFO - Processed 155500000 reads so far
2011-05-20 05:58:58,126 - INFO - Processed 155600000 reads so far
2011-05-20 05:59:09,900 - INFO - Processed 155700000 reads so far
2011-05-20 05:59:18,830 - INFO - Processed 155800000 reads so far
2011-05-20 05:59:28,672 - INFO - Processed 155900000 reads so far
2011-05-20 05:59:35,349 - INFO - Processed 156000000 reads so far
2011-05-20 05:59:42,642 - INFO - Processed 156100000 reads so far
2011-05-20 05:59:49,364 - INFO - Processed 156200000 reads so far
2011-05-20 05:59:57,662 - INFO - Processed 156300000 reads so far
2011-05-20 06:00:05,962 - INFO - Processed 156400000 reads so far
2011-05-20 06:00:16,887 - INFO - Processed 156500000 reads so far
2011-05-20 06:00:25,494 - INFO - Processed 156600000 reads so far
2011-05-20 06:00:26,063 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:42990111-63010111
2011-05-20 06:00:35,251 - INFO - Processed 156700000 reads so far
2011-05-20 06:00:44,678 - INFO - Processed 156800000 reads so far
2011-05-20 06:00:54,110 - INFO - Processed 156900000 reads so far
2011-05-20 06:01:01,746 - INFO - Processed 157000000 reads so far
2011-05-20 06:01:08,911 - INFO - Processed 157100000 reads so far
2011-05-20 06:01:18,314 - INFO - Processed 157200000 reads so far
2011-05-20 06:01:35,797 - INFO - Processed 157300000 reads so far
2011-05-20 06:01:46,353 - INFO - Processed 157400000 reads so far
2011-05-20 06:01:57,145 - INFO - Processed 157500000 reads so far
2011-05-20 06:02:05,951 - INFO - Processed 157600000 reads so far
2011-05-20 06:02:14,216 - INFO - Processed 157700000 reads so far
2011-05-20 06:02:17,583 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:62990118-83010118
2011-05-20 06:02:23,077 - INFO - Processed 157800000 reads so far
2011-05-20 06:02:31,766 - INFO - Processed 157900000 reads so far
2011-05-20 06:02:42,670 - INFO - Processed 158000000 reads so far
2011-05-20 06:02:53,284 - INFO - Processed 158100000 reads so far
2011-05-20 06:03:02,823 - INFO - Processed 158200000 reads so far
2011-05-20 06:03:13,979 - INFO - Processed 158300000 reads so far
2011-05-20 06:03:25,499 - INFO - Processed 158400000 reads so far
2011-05-20 06:03:37,383 - INFO - Processed 158500000 reads so far
2011-05-20 06:03:49,269 - INFO - Processed 158600000 reads so far
2011-05-20 06:03:58,227 - INFO - Processed 158700000 reads so far
2011-05-20 06:04:05,523 - INFO - Processed 158800000 reads so far
2011-05-20 06:04:17,180 - INFO - Processed 158900000 reads so far
2011-05-20 06:04:27,250 - INFO - Processed 159000000 reads so far
2011-05-20 06:04:29,227 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:82990164-103010164
2011-05-20 06:04:38,510 - INFO - Processed 159100000 reads so far
2011-05-20 06:04:50,328 - INFO - Processed 159200000 reads so far
2011-05-20 06:05:01,533 - INFO - Processed 159300000 reads so far
2011-05-20 06:05:12,771 - INFO - Processed 159400000 reads so far
2011-05-20 06:05:24,170 - INFO - Processed 159500000 reads so far
2011-05-20 06:05:35,092 - INFO - Processed 159600000 reads so far
2011-05-20 06:05:45,683 - INFO - Processed 159700000 reads so far
2011-05-20 06:05:56,776 - INFO - Processed 159800000 reads so far
2011-05-20 06:06:09,065 - INFO - Processed 159900000 reads so far
2011-05-20 06:06:20,630 - INFO - Processed 160000000 reads so far
2011-05-20 06:06:31,564 - INFO - Processed 160100000 reads so far
2011-05-20 06:06:43,509 - INFO - Processed 160200000 reads so far
2011-05-20 06:06:52,868 - INFO - Processed 160300000 reads so far
2011-05-20 06:06:54,816 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:102990179-123010179
2011-05-20 06:07:04,201 - INFO - Processed 160400000 reads so far
2011-05-20 06:07:14,988 - INFO - Processed 160500000 reads so far
2011-05-20 06:07:26,532 - INFO - Processed 160600000 reads so far
2011-05-20 06:07:38,831 - INFO - Processed 160700000 reads so far
2011-05-20 06:07:49,429 - INFO - Processed 160800000 reads so far
2011-05-20 06:08:00,480 - INFO - Processed 160900000 reads so far
2011-05-20 06:08:11,780 - INFO - Processed 161000000 reads so far
2011-05-20 06:08:22,860 - INFO - Processed 161100000 reads so far
2011-05-20 06:08:33,497 - INFO - Processed 161200000 reads so far
2011-05-20 06:08:45,876 - INFO - Processed 161300000 reads so far
2011-05-20 06:08:59,908 - INFO - Processed 161400000 reads so far
2011-05-20 06:09:11,741 - INFO - Processed 161500000 reads so far
2011-05-20 06:09:23,606 - INFO - Processed 161600000 reads so far
2011-05-20 06:09:25,390 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:122990195-143010195
2011-05-20 06:09:35,118 - INFO - Processed 161700000 reads so far
2011-05-20 06:09:45,604 - INFO - Processed 161800000 reads so far
2011-05-20 06:09:57,229 - INFO - Processed 161900000 reads so far
2011-05-20 06:10:06,327 - INFO - Processed 162000000 reads so far
2011-05-20 06:10:16,569 - INFO - Processed 162100000 reads so far
2011-05-20 06:10:27,677 - INFO - Processed 162200000 reads so far
2011-05-20 06:10:33,059 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8_random:0-20010006
2011-05-20 06:10:43,176 - INFO - Processed 162300000 reads so far
2011-05-20 06:10:52,630 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:2989970-23009970
2011-05-20 06:10:52,914 - INFO - Processed 162400000 reads so far
2011-05-20 06:11:06,175 - INFO - Processed 162500000 reads so far
2011-05-20 06:11:13,719 - INFO - Processed 162600000 reads so far
2011-05-20 06:11:23,478 - INFO - Processed 162700000 reads so far
2011-05-20 06:11:32,744 - INFO - Processed 162800000 reads so far
2011-05-20 06:11:41,343 - INFO - Processed 162900000 reads so far
2011-05-20 06:11:51,377 - INFO - Processed 163000000 reads so far
2011-05-20 06:11:59,648 - INFO - Processed 163100000 reads so far
2011-05-20 06:12:11,295 - INFO - Processed 163200000 reads so far
2011-05-20 06:12:20,328 - INFO - Processed 163300000 reads so far
2011-05-20 06:12:36,499 - INFO - Processed 163400000 reads so far
2011-05-20 06:12:44,661 - INFO - Processed 163500000 reads so far
2011-05-20 06:12:57,523 - INFO - Processed 163600000 reads so far
2011-05-20 06:13:07,775 - INFO - Processed 163700000 reads so far
2011-05-20 06:13:23,771 - INFO - Processed 163800000 reads so far
2011-05-20 06:13:33,880 - INFO - Processed 163900000 reads so far
2011-05-20 06:13:42,788 - INFO - Processed 164000000 reads so far
2011-05-20 06:13:49,982 - INFO - Processed 164100000 reads so far
2011-05-20 06:13:57,486 - INFO - Processed 164200000 reads so far
2011-05-20 06:14:06,789 - INFO - Processed 164300000 reads so far
2011-05-20 06:14:16,688 - INFO - Processed 164400000 reads so far
2011-05-20 06:14:25,300 - INFO - Processed 164500000 reads so far
2011-05-20 06:14:34,157 - INFO - Processed 164600000 reads so far
2011-05-20 06:14:44,146 - INFO - Processed 164700000 reads so far
2011-05-20 06:14:53,297 - INFO - Processed 164800000 reads so far
2011-05-20 06:15:00,544 - INFO - Processed 164900000 reads so far
2011-05-20 06:15:11,142 - INFO - Processed 165000000 reads so far
2011-05-20 06:15:19,193 - INFO - Processed 165100000 reads so far
2011-05-20 06:15:27,703 - INFO - Processed 165200000 reads so far
2011-05-20 06:15:36,651 - INFO - Processed 165300000 reads so far
2011-05-20 06:15:46,085 - INFO - Processed 165400000 reads so far
2011-05-20 06:15:53,538 - INFO - Processed 165500000 reads so far
2011-05-20 06:16:04,369 - INFO - Processed 165600000 reads so far
2011-05-20 06:16:12,794 - INFO - Processed 165700000 reads so far
2011-05-20 06:16:23,950 - INFO - Processed 165800000 reads so far
2011-05-20 06:16:34,988 - INFO - Processed 165900000 reads so far
2011-05-20 06:16:42,845 - INFO - Processed 166000000 reads so far
2011-05-20 06:16:51,509 - INFO - Processed 166100000 reads so far
2011-05-20 06:17:00,071 - INFO - Processed 166200000 reads so far
2011-05-20 06:17:08,379 - INFO - Processed 166300000 reads so far
2011-05-20 06:17:15,050 - INFO - Processed 166400000 reads so far
2011-05-20 06:17:24,565 - INFO - Processed 166500000 reads so far
2011-05-20 06:17:33,475 - INFO - Processed 166600000 reads so far
2011-05-20 06:17:46,281 - INFO - Processed 166700000 reads so far
2011-05-20 06:17:54,670 - INFO - Processed 166800000 reads so far
2011-05-20 06:18:04,318 - INFO - Processed 166900000 reads so far
2011-05-20 06:18:15,533 - INFO - Processed 167000000 reads so far
2011-05-20 06:18:24,607 - INFO - Processed 167100000 reads so far
2011-05-20 06:18:33,657 - INFO - Processed 167200000 reads so far
2011-05-20 06:18:41,785 - INFO - Processed 167300000 reads so far
2011-05-20 06:18:49,844 - INFO - Processed 167400000 reads so far
2011-05-20 06:18:59,810 - INFO - Processed 167500000 reads so far
2011-05-20 06:19:09,499 - INFO - Processed 167600000 reads so far
2011-05-20 06:19:19,203 - INFO - Processed 167700000 reads so far
2011-05-20 06:19:27,937 - INFO - Processed 167800000 reads so far
2011-05-20 06:19:35,494 - INFO - Processed 167900000 reads so far
2011-05-20 06:19:44,937 - INFO - Processed 168000000 reads so far
2011-05-20 06:19:54,328 - INFO - Processed 168100000 reads so far
2011-05-20 06:20:00,867 - INFO - Processed 168200000 reads so far
2011-05-20 06:20:09,747 - INFO - Processed 168300000 reads so far
2011-05-20 06:20:16,471 - INFO - Processed 168400000 reads so far
2011-05-20 06:20:23,653 - INFO - Processed 168500000 reads so far
2011-05-20 06:20:31,346 - INFO - Processed 168600000 reads so far
2011-05-20 06:20:38,175 - INFO - Processed 168700000 reads so far
2011-05-20 06:20:47,014 - INFO - Processed 168800000 reads so far
2011-05-20 06:20:53,905 - INFO - Processed 168900000 reads so far
2011-05-20 06:21:00,943 - INFO - Processed 169000000 reads so far
2011-05-20 06:21:10,477 - INFO - Processed 169100000 reads so far
2011-05-20 06:21:18,653 - INFO - Processed 169200000 reads so far
2011-05-20 06:21:27,214 - INFO - Processed 169300000 reads so far
2011-05-20 06:21:34,516 - INFO - Processed 169400000 reads so far
2011-05-20 06:21:42,664 - INFO - Processed 169500000 reads so far
2011-05-20 06:21:52,096 - INFO - Processed 169600000 reads so far
2011-05-20 06:22:01,235 - INFO - Processed 169700000 reads so far
2011-05-20 06:22:10,580 - INFO - Processed 169800000 reads so far
2011-05-20 06:22:20,307 - INFO - Processed 169900000 reads so far
2011-05-20 06:22:27,768 - INFO - Processed 170000000 reads so far
2011-05-20 06:22:35,305 - INFO - Processed 170100000 reads so far
2011-05-20 06:22:46,305 - INFO - Processed 170200000 reads so far
2011-05-20 06:22:55,991 - INFO - Processed 170300000 reads so far
2011-05-20 06:23:07,925 - INFO - Processed 170400000 reads so far
2011-05-20 06:23:20,347 - INFO - Processed 170500000 reads so far
2011-05-20 06:23:29,966 - INFO - Processed 170600000 reads so far
2011-05-20 06:23:40,669 - INFO - Processed 170700000 reads so far
2011-05-20 06:23:50,819 - INFO - Processed 170800000 reads so far
2011-05-20 06:24:02,246 - INFO - Processed 170900000 reads so far
2011-05-20 06:24:11,148 - INFO - Processed 171000000 reads so far
2011-05-20 06:24:20,075 - INFO - Processed 171100000 reads so far
2011-05-20 06:24:28,916 - INFO - Processed 171200000 reads so far
2011-05-20 06:24:41,408 - INFO - Processed 171300000 reads so far
2011-05-20 06:24:49,990 - INFO - Processed 171400000 reads so far
2011-05-20 06:24:59,112 - INFO - Processed 171500000 reads so far
2011-05-20 06:25:08,571 - INFO - Processed 171600000 reads so far
2011-05-20 06:25:22,645 - INFO - Processed 171700000 reads so far
2011-05-20 06:25:34,074 - INFO - Processed 171800000 reads so far
2011-05-20 06:25:46,363 - INFO - Processed 171900000 reads so far
2011-05-20 06:25:58,033 - INFO - Processed 172000000 reads so far
2011-05-20 06:26:09,864 - INFO - Processed 172100000 reads so far
2011-05-20 06:26:22,370 - INFO - Processed 172200000 reads so far
2011-05-20 06:26:33,705 - INFO - Processed 172300000 reads so far
2011-05-20 06:26:42,904 - INFO - Processed 172400000 reads so far
2011-05-20 06:26:50,843 - INFO - Processed 172500000 reads so far
2011-05-20 06:27:01,568 - INFO - Processed 172600000 reads so far
2011-05-20 06:27:12,855 - INFO - Processed 172700000 reads so far
2011-05-20 06:27:24,694 - INFO - Processed 172800000 reads so far
2011-05-20 06:27:34,990 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:22989990-43009990
2011-05-20 06:27:35,156 - INFO - Processed 172900000 reads so far
2011-05-20 06:27:43,376 - INFO - Processed 173000000 reads so far
2011-05-20 06:27:53,202 - INFO - Processed 173100000 reads so far
2011-05-20 06:28:02,069 - INFO - Processed 173200000 reads so far
2011-05-20 06:28:11,822 - INFO - Processed 173300000 reads so far
2011-05-20 06:28:21,849 - INFO - Processed 173400000 reads so far
2011-05-20 06:28:32,804 - INFO - Processed 173500000 reads so far
2011-05-20 06:28:42,271 - INFO - Processed 173600000 reads so far
2011-05-20 06:28:53,020 - INFO - Processed 173700000 reads so far
2011-05-20 06:29:03,330 - INFO - Processed 173800000 reads so far
2011-05-20 06:29:12,741 - INFO - Processed 173900000 reads so far
2011-05-20 06:29:22,751 - INFO - Processed 174000000 reads so far
2011-05-20 06:29:32,907 - INFO - Processed 174100000 reads so far
2011-05-20 06:29:44,131 - INFO - Processed 174200000 reads so far
2011-05-20 06:29:53,592 - INFO - Processed 174300000 reads so far
2011-05-20 06:30:01,829 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:42989992-63009992
2011-05-20 06:30:02,316 - INFO - Processed 174400000 reads so far
2011-05-20 06:30:12,046 - INFO - Processed 174500000 reads so far
2011-05-20 06:30:20,339 - INFO - Processed 174600000 reads so far
2011-05-20 06:30:30,319 - INFO - Processed 174700000 reads so far
2011-05-20 06:30:38,602 - INFO - Processed 174800000 reads so far
2011-05-20 06:30:49,475 - INFO - Processed 174900000 reads so far
2011-05-20 06:30:57,699 - INFO - Processed 175000000 reads so far
2011-05-20 06:31:09,088 - INFO - Processed 175100000 reads so far
2011-05-20 06:31:20,445 - INFO - Processed 175200000 reads so far
2011-05-20 06:31:32,733 - INFO - Processed 175300000 reads so far
2011-05-20 06:31:43,918 - INFO - Processed 175400000 reads so far
2011-05-20 06:31:57,629 - INFO - Processed 175500000 reads so far
2011-05-20 06:32:08,336 - INFO - Processed 175600000 reads so far
2011-05-20 06:32:17,669 - INFO - Processed 175700000 reads so far
2011-05-20 06:32:21,610 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:62990022-83010022
2011-05-20 06:32:28,123 - INFO - Processed 175800000 reads so far
2011-05-20 06:32:38,621 - INFO - Processed 175900000 reads so far
2011-05-20 06:32:48,725 - INFO - Processed 176000000 reads so far
2011-05-20 06:32:59,012 - INFO - Processed 176100000 reads so far
2011-05-20 06:33:07,293 - INFO - Processed 176200000 reads so far
2011-05-20 06:33:16,238 - INFO - Processed 176300000 reads so far
2011-05-20 06:33:27,262 - INFO - Processed 176400000 reads so far
2011-05-20 06:33:35,887 - INFO - Processed 176500000 reads so far
2011-05-20 06:33:46,623 - INFO - Processed 176600000 reads so far
2011-05-20 06:33:58,112 - INFO - Processed 176700000 reads so far
2011-05-20 06:34:07,276 - INFO - Processed 176800000 reads so far
2011-05-20 06:34:15,780 - INFO - Processed 176900000 reads so far
2011-05-20 06:34:23,662 - INFO - Processed 177000000 reads so far
2011-05-20 06:34:23,871 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:82990024-103010024
2011-05-20 06:34:32,154 - INFO - Processed 177100000 reads so far
2011-05-20 06:34:41,527 - INFO - Processed 177200000 reads so far
2011-05-20 06:34:50,151 - INFO - Processed 177300000 reads so far
2011-05-20 06:34:58,035 - INFO - Processed 177400000 reads so far
2011-05-20 06:35:07,410 - INFO - Processed 177500000 reads so far
2011-05-20 06:35:16,692 - INFO - Processed 177600000 reads so far
2011-05-20 06:35:24,853 - INFO - Processed 177700000 reads so far
2011-05-20 06:35:32,735 - INFO - Processed 177800000 reads so far
2011-05-20 06:35:41,631 - INFO - Processed 177900000 reads so far
2011-05-20 06:35:54,345 - INFO - Processed 178000000 reads so far
2011-05-20 06:36:04,177 - INFO - Processed 178100000 reads so far
2011-05-20 06:36:13,386 - INFO - Processed 178200000 reads so far
2011-05-20 06:36:22,121 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:102990046-123010046
2011-05-20 06:36:23,792 - INFO - Processed 178300000 reads so far
2011-05-20 06:36:32,962 - INFO - Processed 178400000 reads so far
2011-05-20 06:36:40,720 - INFO - Processed 178500000 reads so far
2011-05-20 06:36:49,809 - INFO - Processed 178600000 reads so far
2011-05-20 06:36:59,655 - INFO - Processed 178700000 reads so far
2011-05-20 06:37:08,703 - INFO - Processed 178800000 reads so far
2011-05-20 06:37:16,477 - INFO - Processed 178900000 reads so far
2011-05-20 06:37:27,377 - INFO - Processed 179000000 reads so far
2011-05-20 06:37:39,054 - INFO - Processed 179100000 reads so far
2011-05-20 06:37:47,761 - INFO - Processed 179200000 reads so far
2011-05-20 06:37:56,451 - INFO - Processed 179300000 reads so far
2011-05-20 06:38:06,479 - INFO - Processed 179400000 reads so far
2011-05-20 06:38:15,723 - INFO - Processed 179500000 reads so far
2011-05-20 06:38:24,018 - INFO - Processed 179600000 reads so far
2011-05-20 06:38:25,988 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:122990049-143010049
2011-05-20 06:38:31,211 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9_random:0-20010005
2011-05-20 06:38:31,788 - INFO - Processed 179700000 reads so far
2011-05-20 06:38:34,623 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrM:0-20010000
2011-05-20 06:38:39,332 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrUn_random:0-20010001
2011-05-20 06:38:39,409 - INFO - Processed 179800000 reads so far
2011-05-20 06:38:49,307 - INFO - Processed 179900000 reads so far
2011-05-20 06:38:56,625 - INFO - Processed 180000000 reads so far
2011-05-20 06:39:06,504 - INFO - Processed 180100000 reads so far
2011-05-20 06:39:14,845 - INFO - Processed 180200000 reads so far
2011-05-20 06:39:19,550 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:2990033-23010033
2011-05-20 06:39:22,364 - INFO - Processed 180300000 reads so far
2011-05-20 06:39:30,047 - INFO - Processed 180400000 reads so far
2011-05-20 06:39:38,962 - INFO - Processed 180500000 reads so far
2011-05-20 06:39:48,417 - INFO - Processed 180600000 reads so far
2011-05-20 06:39:58,279 - INFO - Processed 180700000 reads so far
2011-05-20 06:40:09,601 - INFO - Processed 180800000 reads so far
2011-05-20 06:40:19,811 - INFO - Processed 180900000 reads so far
2011-05-20 06:40:29,799 - INFO - Processed 181000000 reads so far
2011-05-20 06:40:39,035 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:22990038-43010038
2011-05-20 06:40:40,221 - INFO - Processed 181100000 reads so far
2011-05-20 06:40:48,842 - INFO - Processed 181200000 reads so far
2011-05-20 06:41:01,836 - INFO - Processed 181300000 reads so far
2011-05-20 06:41:10,278 - INFO - Processed 181400000 reads so far
2011-05-20 06:41:18,969 - INFO - Processed 181500000 reads so far
2011-05-20 06:41:29,081 - INFO - Processed 181600000 reads so far
2011-05-20 06:41:43,067 - INFO - Processed 181700000 reads so far
2011-05-20 06:41:54,779 - INFO - Processed 181800000 reads so far
2011-05-20 06:42:06,032 - INFO - Processed 181900000 reads so far
2011-05-20 06:42:07,496 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:42990058-63010058
2011-05-20 06:42:17,457 - INFO - Processed 182000000 reads so far
2011-05-20 06:42:29,150 - INFO - Processed 182100000 reads so far
2011-05-20 06:42:41,364 - INFO - Processed 182200000 reads so far
2011-05-20 06:42:52,474 - INFO - Processed 182300000 reads so far
2011-05-20 06:43:03,589 - INFO - Processed 182400000 reads so far
2011-05-20 06:43:14,453 - INFO - Processed 182500000 reads so far
2011-05-20 06:43:25,886 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:62990065-83010065
2011-05-20 06:43:26,800 - INFO - Processed 182600000 reads so far
2011-05-20 06:43:38,851 - INFO - Processed 182700000 reads so far
2011-05-20 06:43:50,298 - INFO - Processed 182800000 reads so far
2011-05-20 06:44:02,021 - INFO - Processed 182900000 reads so far
2011-05-20 06:44:12,982 - INFO - Processed 183000000 reads so far
2011-05-20 06:44:22,527 - INFO - Processed 183100000 reads so far
2011-05-20 06:44:35,176 - INFO - Processed 183200000 reads so far
2011-05-20 06:44:43,494 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:82990078-103010078
2011-05-20 06:44:47,602 - INFO - Processed 183300000 reads so far
2011-05-20 06:44:57,906 - INFO - Processed 183400000 reads so far
2011-05-20 06:45:06,681 - INFO - Processed 183500000 reads so far
2011-05-20 06:45:17,985 - INFO - Processed 183600000 reads so far
2011-05-20 06:45:30,123 - INFO - Processed 183700000 reads so far
2011-05-20 06:45:41,700 - INFO - Processed 183800000 reads so far
2011-05-20 06:45:54,007 - INFO - Processed 183900000 reads so far
2011-05-20 06:45:56,634 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:102990160-123010160
2011-05-20 06:46:03,842 - INFO - Processed 184000000 reads so far
2011-05-20 06:46:17,565 - INFO - Processed 184100000 reads so far
2011-05-20 06:46:29,238 - INFO - Processed 184200000 reads so far
2011-05-20 06:46:41,912 - INFO - Processed 184300000 reads so far
2011-05-20 06:46:52,092 - INFO - Processed 184400000 reads so far
2011-05-20 06:47:01,829 - INFO - Processed 184500000 reads so far
2011-05-20 06:47:12,006 - INFO - Processed 184600000 reads so far
2011-05-20 06:47:19,662 - INFO - Processed 184700000 reads so far
2011-05-20 06:47:22,484 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:122990198-143010198
2011-05-20 06:47:32,318 - INFO - Processed 184800000 reads so far
2011-05-20 06:47:42,661 - INFO - Processed 184900000 reads so far
2011-05-20 06:47:53,756 - INFO - Processed 185000000 reads so far
2011-05-20 06:48:04,859 - INFO - Processed 185100000 reads so far
2011-05-20 06:48:14,862 - INFO - Processed 185200000 reads so far
2011-05-20 06:48:26,273 - INFO - Processed 185300000 reads so far
2011-05-20 06:48:38,549 - INFO - Processed 185400000 reads so far
2011-05-20 06:48:45,234 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:142990273-163010273
2011-05-20 06:48:49,765 - INFO - Processed 185500000 reads so far
2011-05-20 06:48:58,611 - INFO - Processed 185600000 reads so far
2011-05-20 06:49:07,468 - INFO - Processed 185700000 reads so far
2011-05-20 06:49:17,560 - INFO - Processed 185800000 reads so far
2011-05-20 06:49:28,071 - INFO - Processed 185900000 reads so far
2011-05-20 06:49:41,065 - INFO - Processed 186000000 reads so far
2011-05-20 06:49:51,047 - INFO - Processed 186100000 reads so far
2011-05-20 06:49:51,877 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:162990304-183010304
2011-05-20 06:50:00,260 - INFO - Processed 186200000 reads so far
2011-05-20 06:50:08,115 - INFO - Processed 186300000 reads so far
2011-05-20 06:50:10,517 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX_random:0-20010000
2011-05-20 06:50:16,232 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrY:0-20010007
2011-05-20 06:50:19,824 - INFO - Processed 186400000 reads so far
2011-05-20 06:50:26,549 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrY_random:0-20010220
2011-05-20 06:50:29,177 - INFO - Processed 186500000 reads so far
2011-05-20 06:50:41,585 - INFO - Processed 186600000 reads so far
2011-05-20 06:50:53,192 - INFO - Processed 186700000 reads so far
2011-05-20 06:51:03,143 - INFO - Processed 186800000 reads so far
2011-05-20 06:51:11,307 - INFO - Processed 186900000 reads so far
2011-05-20 06:51:20,791 - INFO - Processed 187000000 reads so far
2011-05-20 06:51:30,645 - INFO - Processed 187100000 reads so far
2011-05-20 06:51:37,928 - INFO - Processed 187200000 reads so far
2011-05-20 06:51:45,784 - INFO - Processed 187300000 reads so far
2011-05-20 06:51:54,670 - INFO - Processed 187400000 reads so far
2011-05-20 06:51:59,440 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrY_random:19990559-40010559
2011-05-20 06:52:03,688 - INFO - Processed 187500000 reads so far
2011-05-20 06:52:12,775 - INFO - Processed 187600000 reads so far
2011-05-20 06:52:22,615 - INFO - Processed 187700000 reads so far
2011-05-20 06:52:32,484 - INFO - Processed 187800000 reads so far
2011-05-20 06:52:41,701 - INFO - Processed 187900000 reads so far
2011-05-20 06:52:46,435 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrY_random:39990592-60010592
2011-05-20 06:52:51,021 - INFO - Processed 188000000 reads so far
2011-05-20 06:52:59,816 - INFO - Processed 188100000 reads so far
2011-05-20 06:53:10,438 - INFO - Processed 188200000 reads so far
2011-05-20 06:53:19,630 - INFO - Processed 188300000 reads so far
2011-05-20 06:53:30,876 - INFO - Processed 188400000 reads so far
2011-05-20 06:53:42,860 - INFO - Processed 188500000 reads so far
2011-05-20 06:53:54,552 - INFO - Processed 188600000 reads so far
2011-05-20 06:54:02,563 - INFO - Processed 188700000 reads so far
2011-05-20 06:54:05,588 - INFO - Processed 188800000 reads so far
2011-05-20 06:54:08,616 - INFO - Processed 188900000 reads so far
2011-05-20 06:54:12,126 - INFO - Processed 189000000 reads so far
2011-05-20 06:54:16,954 - INFO - Processed 189100000 reads so far
2011-05-20 06:54:19,982 - INFO - Processed 189200000 reads so far
2011-05-20 06:54:22,958 - INFO - Processed 189300000 reads so far
2011-05-20 06:54:26,071 - INFO - Processed 189400000 reads so far
2011-05-20 06:54:29,993 - INFO - Processed 189500000 reads so far
2011-05-20 06:54:34,607 - INFO - Processed 189600000 reads so far
2011-05-20 06:54:38,733 - INFO - Processed 189700000 reads so far
2011-05-20 06:54:42,232 - INFO - Processed 189800000 reads so far
2011-05-20 06:54:46,416 - INFO - Processed 189900000 reads so far
2011-05-20 06:54:52,451 - INFO - Processed 190000000 reads so far
2011-05-20 06:54:56,230 - INFO - Processed 190100000 reads so far
2011-05-20 06:54:59,964 - INFO - Processed 190200000 reads so far
2011-05-20 06:55:02,959 - INFO - Processed 190300000 reads so far
2011-05-20 06:55:06,287 - INFO - Processed 190400000 reads so far
2011-05-20 06:55:09,502 - INFO - Processed 190500000 reads so far
2011-05-20 06:55:14,872 - INFO - Processed 190600000 reads so far
2011-05-20 06:55:19,067 - INFO - Processed 190700000 reads so far
2011-05-20 06:55:23,563 - INFO - Processed 190800000 reads so far
2011-05-20 06:55:27,982 - INFO - Processed 190900000 reads so far
2011-05-20 06:55:32,385 - INFO - Processed 191000000 reads so far
2011-05-20 06:55:35,763 - INFO - Finished loading data. Outputting QC metrics
2011-05-20 06:56:11,866 - INFO - Finished outputting QC metrics
2011-05-20 06:56:12,037 - INFO - Finished generating QC metrics