2011-05-19 15:51:50,344 - INFO - Generating QC metrics for BAM File ['WTCHG_13405.bam']
2011-05-19 15:51:50,344 - INFO - Output will go to WTCHG_13405.qc.txt.tmp
2011-05-19 15:51:50,344 - INFO - Reading GC Map from file /data/Genomes/gcMap/Mouse37.gcMap.gz
2011-05-19 15:54:51,469 - INFO - Finished reading GC Map
2011-05-19 15:54:51,469 - INFO - Reading CDS from exon definition file /data/Genomes/annotation/Mouse37.refGene.txt.gz
2011-05-19 15:54:53,863 - INFO - Read 382138 exons (33804740 nucleotides) for 32 chromosomes
2011-05-19 15:54:53,864 - INFO - Computing coverage cut-off
2011-05-19 15:54:53,864 - INFO - Retrieving BAM file coverage info from samtools pileup
2011-05-19 15:54:59,121 - INFO - Processed 1000000 pile-up sites
2011-05-19 15:55:03,841 - INFO - Processed 2000000 pile-up sites
2011-05-19 15:55:08,625 - INFO - Processed 3000000 pile-up sites
2011-05-19 15:55:13,450 - INFO - Processed 4000000 pile-up sites
2011-05-19 15:55:17,860 - INFO - Processed 5000000 pile-up sites
2011-05-19 15:55:22,634 - INFO - Processed 6000000 pile-up sites
2011-05-19 15:55:27,558 - INFO - Processed 7000000 pile-up sites
2011-05-19 15:55:32,744 - INFO - Processed 8000000 pile-up sites
2011-05-19 15:55:37,569 - INFO - Processed 9000000 pile-up sites
2011-05-19 15:55:41,919 - INFO - Processed 10000000 pile-up sites
2011-05-19 15:55:46,321 - INFO - Processed 11000000 pile-up sites
2011-05-19 15:55:51,369 - INFO - Processed 12000000 pile-up sites
2011-05-19 15:55:56,591 - INFO - Processed 13000000 pile-up sites
2011-05-19 15:56:01,232 - INFO - Processed 14000000 pile-up sites
2011-05-19 15:56:07,070 - INFO - Processed 15000000 pile-up sites
2011-05-19 15:56:12,321 - INFO - Processed 16000000 pile-up sites
2011-05-19 15:56:20,202 - INFO - Processed 17000000 pile-up sites
2011-05-19 15:56:25,311 - INFO - Processed 18000000 pile-up sites
2011-05-19 15:56:30,506 - INFO - Processed 19000000 pile-up sites
2011-05-19 15:56:36,974 - INFO - Processed 20000000 pile-up sites
2011-05-19 15:56:43,888 - INFO - Processed 21000000 pile-up sites
2011-05-19 15:56:50,560 - INFO - Processed 22000000 pile-up sites
2011-05-19 15:56:55,982 - INFO - Processed 23000000 pile-up sites
2011-05-19 15:57:02,094 - INFO - Processed 24000000 pile-up sites
2011-05-19 15:57:08,176 - INFO - Processed 25000000 pile-up sites
2011-05-19 15:57:12,864 - INFO - Processed 26000000 pile-up sites
2011-05-19 15:57:17,489 - INFO - Processed 27000000 pile-up sites
2011-05-19 15:57:22,359 - INFO - Processed 28000000 pile-up sites
2011-05-19 15:57:27,038 - INFO - Processed 29000000 pile-up sites
2011-05-19 15:57:30,717 - INFO - Finished processing pile-up on 29786588 sites (200000010 nucleotides)
2011-05-19 15:57:30,718 - INFO - Coverage cut-off value is 34
2011-05-19 15:57:30,718 - INFO - Loading data into QC data manager
2011-05-19 15:57:31,492 - INFO - Reading data from BAM file WTCHG_13405.bam. All reads in file will be read
2011-05-19 15:57:31,534 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:2990035-23010035
2011-05-19 15:57:43,559 - INFO - Processed 100000 reads so far
2011-05-19 15:57:56,532 - INFO - Processed 200000 reads so far
2011-05-19 15:58:09,421 - INFO - Processed 300000 reads so far
2011-05-19 15:58:22,535 - INFO - Processed 400000 reads so far
2011-05-19 15:58:34,420 - INFO - Processed 500000 reads so far
2011-05-19 15:58:45,479 - INFO - Processed 600000 reads so far
2011-05-19 15:58:56,547 - INFO - Processed 700000 reads so far
2011-05-19 15:59:07,806 - INFO - Processed 800000 reads so far
2011-05-19 15:59:19,511 - INFO - Processed 900000 reads so far
2011-05-19 15:59:30,943 - INFO - Processed 1000000 reads so far
2011-05-19 15:59:40,555 - INFO - Processed 1100000 reads so far
2011-05-19 15:59:53,630 - INFO - Processed 1200000 reads so far
2011-05-19 16:00:06,772 - INFO - Processed 1300000 reads so far
2011-05-19 16:00:13,129 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:22990059-43010059
2011-05-19 16:00:20,703 - INFO - Processed 1400000 reads so far
2011-05-19 16:00:31,379 - INFO - Processed 1500000 reads so far
2011-05-19 16:00:40,300 - INFO - Processed 1600000 reads so far
2011-05-19 16:00:48,797 - INFO - Processed 1700000 reads so far
2011-05-19 16:00:58,489 - INFO - Processed 1800000 reads so far
2011-05-19 16:01:08,780 - INFO - Processed 1900000 reads so far
2011-05-19 16:01:21,352 - INFO - Processed 2000000 reads so far
2011-05-19 16:01:34,037 - INFO - Processed 2100000 reads so far
2011-05-19 16:01:47,378 - INFO - Processed 2200000 reads so far
2011-05-19 16:01:58,963 - INFO - Processed 2300000 reads so far
2011-05-19 16:02:08,159 - INFO - Processed 2400000 reads so far
2011-05-19 16:02:17,988 - INFO - Processed 2500000 reads so far
2011-05-19 16:02:29,762 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:42990101-63010101
2011-05-19 16:02:30,545 - INFO - Processed 2600000 reads so far
2011-05-19 16:02:42,732 - INFO - Processed 2700000 reads so far
2011-05-19 16:02:56,115 - INFO - Processed 2800000 reads so far
2011-05-19 16:03:08,891 - INFO - Processed 2900000 reads so far
2011-05-19 16:03:20,398 - INFO - Processed 3000000 reads so far
2011-05-19 16:03:32,442 - INFO - Processed 3100000 reads so far
2011-05-19 16:03:44,187 - INFO - Processed 3200000 reads so far
2011-05-19 16:03:55,504 - INFO - Processed 3300000 reads so far
2011-05-19 16:04:09,415 - INFO - Processed 3400000 reads so far
2011-05-19 16:04:20,094 - INFO - Processed 3500000 reads so far
2011-05-19 16:04:31,330 - INFO - Processed 3600000 reads so far
2011-05-19 16:04:42,064 - INFO - Processed 3700000 reads so far
2011-05-19 16:04:53,185 - INFO - Processed 3800000 reads so far
2011-05-19 16:04:58,797 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:62990135-83010135
2011-05-19 16:05:02,387 - INFO - Processed 3900000 reads so far
2011-05-19 16:05:11,555 - INFO - Processed 4000000 reads so far
2011-05-19 16:05:23,957 - INFO - Processed 4100000 reads so far
2011-05-19 16:05:35,582 - INFO - Processed 4200000 reads so far
2011-05-19 16:05:51,117 - INFO - Processed 4300000 reads so far
2011-05-19 16:06:01,594 - INFO - Processed 4400000 reads so far
2011-05-19 16:06:12,181 - INFO - Processed 4500000 reads so far
2011-05-19 16:06:22,765 - INFO - Processed 4600000 reads so far
2011-05-19 16:06:34,484 - INFO - Processed 4700000 reads so far
2011-05-19 16:06:45,193 - INFO - Processed 4800000 reads so far
2011-05-19 16:06:56,904 - INFO - Processed 4900000 reads so far
2011-05-19 16:07:08,717 - INFO - Processed 5000000 reads so far
2011-05-19 16:07:21,274 - INFO - Processed 5100000 reads so far
2011-05-19 16:07:33,054 - INFO - Processed 5200000 reads so far
2011-05-19 16:07:36,143 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:82990150-103010150
2011-05-19 16:07:44,528 - INFO - Processed 5300000 reads so far
2011-05-19 16:07:55,946 - INFO - Processed 5400000 reads so far
2011-05-19 16:08:08,720 - INFO - Processed 5500000 reads so far
2011-05-19 16:08:19,980 - INFO - Processed 5600000 reads so far
2011-05-19 16:08:34,448 - INFO - Processed 5700000 reads so far
2011-05-19 16:09:06,056 - INFO - Processed 5800000 reads so far
2011-05-19 16:09:17,723 - INFO - Processed 5900000 reads so far
2011-05-19 16:09:29,661 - INFO - Processed 6000000 reads so far
2011-05-19 16:09:39,729 - INFO - Processed 6100000 reads so far
2011-05-19 16:09:50,246 - INFO - Processed 6200000 reads so far
2011-05-19 16:10:01,668 - INFO - Processed 6300000 reads so far
2011-05-19 16:10:12,969 - INFO - Processed 6400000 reads so far
2011-05-19 16:10:24,618 - INFO - Processed 6500000 reads so far
2011-05-19 16:10:33,843 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:102990165-123010165
2011-05-19 16:10:37,062 - INFO - Processed 6600000 reads so far
2011-05-19 16:10:48,479 - INFO - Processed 6700000 reads so far
2011-05-19 16:11:00,112 - INFO - Processed 6800000 reads so far
2011-05-19 16:11:11,408 - INFO - Processed 6900000 reads so far
2011-05-19 16:11:25,077 - INFO - Processed 7000000 reads so far
2011-05-19 16:11:36,664 - INFO - Processed 7100000 reads so far
2011-05-19 16:11:48,462 - INFO - Processed 7200000 reads so far
2011-05-19 16:11:58,401 - INFO - Processed 7300000 reads so far
2011-05-19 16:12:09,728 - INFO - Processed 7400000 reads so far
2011-05-19 16:12:20,992 - INFO - Processed 7500000 reads so far
2011-05-19 16:12:33,786 - INFO - Processed 7600000 reads so far
2011-05-19 16:12:47,159 - INFO - Processed 7700000 reads so far
2011-05-19 16:12:59,267 - INFO - Processed 7800000 reads so far
2011-05-19 16:13:09,429 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:122990195-143010195
2011-05-19 16:13:14,024 - INFO - Processed 7900000 reads so far
2011-05-19 16:13:25,823 - INFO - Processed 8000000 reads so far
2011-05-19 16:13:37,067 - INFO - Processed 8100000 reads so far
2011-05-19 16:13:48,978 - INFO - Processed 8200000 reads so far
2011-05-19 16:14:00,656 - INFO - Processed 8300000 reads so far
2011-05-19 16:14:02,452 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:2990003-23010003
2011-05-19 16:14:11,892 - INFO - Processed 8400000 reads so far
2011-05-19 16:14:22,273 - INFO - Processed 8500000 reads so far
2011-05-19 16:14:33,020 - INFO - Processed 8600000 reads so far
2011-05-19 16:14:44,125 - INFO - Processed 8700000 reads so far
2011-05-19 16:14:53,823 - INFO - Processed 8800000 reads so far
2011-05-19 16:15:05,577 - INFO - Processed 8900000 reads so far
2011-05-19 16:15:16,418 - INFO - Processed 9000000 reads so far
2011-05-19 16:15:28,030 - INFO - Processed 9100000 reads so far
2011-05-19 16:15:39,545 - INFO - Processed 9200000 reads so far
2011-05-19 16:15:53,468 - INFO - Processed 9300000 reads so far
2011-05-19 16:16:05,356 - INFO - Processed 9400000 reads so far
2011-05-19 16:16:17,984 - INFO - Processed 9500000 reads so far
2011-05-19 16:16:30,109 - INFO - Processed 9600000 reads so far
2011-05-19 16:16:41,246 - INFO - Processed 9700000 reads so far
2011-05-19 16:17:20,130 - INFO - Processed 9800000 reads so far
2011-05-19 16:17:30,067 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:22990019-43010019
2011-05-19 16:17:31,468 - INFO - Processed 9900000 reads so far
2011-05-19 16:17:43,585 - INFO - Processed 10000000 reads so far
2011-05-19 16:17:53,754 - INFO - Processed 10100000 reads so far
2011-05-19 16:18:04,476 - INFO - Processed 10200000 reads so far
2011-05-19 16:18:15,777 - INFO - Processed 10300000 reads so far
2011-05-19 16:18:24,564 - INFO - Processed 10400000 reads so far
2011-05-19 16:18:33,477 - INFO - Processed 10500000 reads so far
2011-05-19 16:18:45,787 - INFO - Processed 10600000 reads so far
2011-05-19 16:18:55,578 - INFO - Processed 10700000 reads so far
2011-05-19 16:19:05,121 - INFO - Processed 10800000 reads so far
2011-05-19 16:19:14,628 - INFO - Processed 10900000 reads so far
2011-05-19 16:19:27,567 - INFO - Processed 11000000 reads so far
2011-05-19 16:19:41,111 - INFO - Processed 11100000 reads so far
2011-05-19 16:19:44,600 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:42990039-63010039
2011-05-19 16:19:52,043 - INFO - Processed 11200000 reads so far
2011-05-19 16:20:04,485 - INFO - Processed 11300000 reads so far
2011-05-19 16:20:15,690 - INFO - Processed 11400000 reads so far
2011-05-19 16:20:24,985 - INFO - Processed 11500000 reads so far
2011-05-19 16:20:36,320 - INFO - Processed 11600000 reads so far
2011-05-19 16:20:48,737 - INFO - Processed 11700000 reads so far
2011-05-19 16:21:00,798 - INFO - Processed 11800000 reads so far
2011-05-19 16:21:11,538 - INFO - Processed 11900000 reads so far
2011-05-19 16:21:22,200 - INFO - Processed 12000000 reads so far
2011-05-19 16:21:32,210 - INFO - Processed 12100000 reads so far
2011-05-19 16:21:43,399 - INFO - Processed 12200000 reads so far
2011-05-19 16:21:54,602 - INFO - Processed 12300000 reads so far
2011-05-19 16:22:06,407 - INFO - Processed 12400000 reads so far
2011-05-19 16:22:18,683 - INFO - Processed 12500000 reads so far
2011-05-19 16:22:28,242 - INFO - Processed 12600000 reads so far
2011-05-19 16:22:28,336 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:62990066-83010066
2011-05-19 16:22:39,928 - INFO - Processed 12700000 reads so far
2011-05-19 16:22:52,278 - INFO - Processed 12800000 reads so far
2011-05-19 16:23:04,187 - INFO - Processed 12900000 reads so far
2011-05-19 16:23:15,723 - INFO - Processed 13000000 reads so far
2011-05-19 16:23:27,980 - INFO - Processed 13100000 reads so far
2011-05-19 16:23:40,809 - INFO - Processed 13200000 reads so far
2011-05-19 16:23:51,564 - INFO - Processed 13300000 reads so far
2011-05-19 16:24:02,629 - INFO - Processed 13400000 reads so far
2011-05-19 16:24:15,278 - INFO - Processed 13500000 reads so far
2011-05-19 16:24:27,180 - INFO - Processed 13600000 reads so far
2011-05-19 16:24:38,230 - INFO - Processed 13700000 reads so far
2011-05-19 16:24:49,624 - INFO - Processed 13800000 reads so far
2011-05-19 16:25:00,421 - INFO - Processed 13900000 reads so far
2011-05-19 16:25:13,379 - INFO - Processed 14000000 reads so far
2011-05-19 16:25:17,828 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:82990072-103010072
2011-05-19 16:25:24,498 - INFO - Processed 14100000 reads so far
2011-05-19 16:25:35,812 - INFO - Processed 14200000 reads so far
2011-05-19 16:25:47,103 - INFO - Processed 14300000 reads so far
2011-05-19 16:26:00,129 - INFO - Processed 14400000 reads so far
2011-05-19 16:26:11,201 - INFO - Processed 14500000 reads so far
2011-05-19 16:26:23,046 - INFO - Processed 14600000 reads so far
2011-05-19 16:26:34,002 - INFO - Processed 14700000 reads so far
2011-05-19 16:26:44,792 - INFO - Processed 14800000 reads so far
2011-05-19 16:26:57,608 - INFO - Processed 14900000 reads so far
2011-05-19 16:27:11,791 - INFO - Processed 15000000 reads so far
2011-05-19 16:27:26,405 - INFO - Processed 15100000 reads so far
2011-05-19 16:27:38,562 - INFO - Processed 15200000 reads so far
2011-05-19 16:27:52,702 - INFO - Processed 15300000 reads so far
2011-05-19 16:28:04,643 - INFO - Processed 15400000 reads so far
2011-05-19 16:28:06,214 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:102990098-123010098
2011-05-19 16:28:18,921 - INFO - Processed 15500000 reads so far
2011-05-19 16:28:37,694 - INFO - Processed 15600000 reads so far
2011-05-19 16:28:51,798 - INFO - Processed 15700000 reads so far
2011-05-19 16:29:03,978 - INFO - Processed 15800000 reads so far
2011-05-19 16:29:16,726 - INFO - Processed 15900000 reads so far
2011-05-19 16:29:31,567 - INFO - Processed 16000000 reads so far
2011-05-19 16:29:46,731 - INFO - Processed 16100000 reads so far
2011-05-19 16:29:58,200 - INFO - Processed 16200000 reads so far
2011-05-19 16:30:11,319 - INFO - Processed 16300000 reads so far
2011-05-19 16:30:24,546 - INFO - Processed 16400000 reads so far
2011-05-19 16:30:36,941 - INFO - Processed 16500000 reads so far
2011-05-19 16:30:48,358 - INFO - Processed 16600000 reads so far
2011-05-19 16:31:02,394 - INFO - Processed 16700000 reads so far
2011-05-19 16:31:13,929 - INFO - Processed 16800000 reads so far
2011-05-19 16:31:15,426 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:2990041-23010041
2011-05-19 16:31:34,713 - INFO - Processed 16900000 reads so far
2011-05-19 16:31:45,126 - INFO - Processed 17000000 reads so far
2011-05-19 16:32:00,286 - INFO - Processed 17100000 reads so far
2011-05-19 16:32:15,114 - INFO - Processed 17200000 reads so far
2011-05-19 16:32:29,749 - INFO - Processed 17300000 reads so far
2011-05-19 16:32:44,723 - INFO - Processed 17400000 reads so far
2011-05-19 16:32:57,527 - INFO - Processed 17500000 reads so far
2011-05-19 16:33:08,720 - INFO - Processed 17600000 reads so far
2011-05-19 16:33:19,566 - INFO - Processed 17700000 reads so far
2011-05-19 16:33:32,331 - INFO - Processed 17800000 reads so far
2011-05-19 16:33:43,412 - INFO - Processed 17900000 reads so far
2011-05-19 16:33:55,044 - INFO - Processed 18000000 reads so far
2011-05-19 16:34:13,554 - INFO - Processed 18100000 reads so far
2011-05-19 16:34:25,885 - INFO - Processed 18200000 reads so far
2011-05-19 16:34:37,429 - INFO - Processed 18300000 reads so far
2011-05-19 16:34:50,435 - INFO - Processed 18400000 reads so far
2011-05-19 16:34:58,236 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:22990398-43010398
2011-05-19 16:35:03,491 - INFO - Processed 18500000 reads so far
2011-05-19 16:35:15,668 - INFO - Processed 18600000 reads so far
2011-05-19 16:35:28,241 - INFO - Processed 18700000 reads so far
2011-05-19 16:35:39,633 - INFO - Processed 18800000 reads so far
2011-05-19 16:35:52,003 - INFO - Processed 18900000 reads so far
2011-05-19 16:36:02,901 - INFO - Processed 19000000 reads so far
2011-05-19 16:36:14,654 - INFO - Processed 19100000 reads so far
2011-05-19 16:36:26,543 - INFO - Processed 19200000 reads so far
2011-05-19 16:36:37,548 - INFO - Processed 19300000 reads so far
2011-05-19 16:36:48,218 - INFO - Processed 19400000 reads so far
2011-05-19 16:36:58,821 - INFO - Processed 19500000 reads so far
2011-05-19 16:37:10,245 - INFO - Processed 19600000 reads so far
2011-05-19 16:37:23,070 - INFO - Processed 19700000 reads so far
2011-05-19 16:37:25,239 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:42990448-63010448
2011-05-19 16:37:34,846 - INFO - Processed 19800000 reads so far
2011-05-19 16:37:46,986 - INFO - Processed 19900000 reads so far
2011-05-19 16:38:01,421 - INFO - Processed 20000000 reads so far
2011-05-19 16:38:14,375 - INFO - Processed 20100000 reads so far
2011-05-19 16:38:25,693 - INFO - Processed 20200000 reads so far
2011-05-19 16:38:34,691 - INFO - Processed 20300000 reads so far
2011-05-19 16:40:15,765 - INFO - Processed 20400000 reads so far
2011-05-19 16:40:27,120 - INFO - Processed 20500000 reads so far
2011-05-19 16:40:36,284 - INFO - Processed 20600000 reads so far
2011-05-19 16:40:46,378 - INFO - Processed 20700000 reads so far
2011-05-19 16:40:56,017 - INFO - Processed 20800000 reads so far
2011-05-19 16:41:04,975 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:62990450-83010450
2011-05-19 16:41:07,371 - INFO - Processed 20900000 reads so far
2011-05-19 16:41:20,973 - INFO - Processed 21000000 reads so far
2011-05-19 16:41:33,109 - INFO - Processed 21100000 reads so far
2011-05-19 16:41:44,998 - INFO - Processed 21200000 reads so far
2011-05-19 16:41:58,371 - INFO - Processed 21300000 reads so far
2011-05-19 16:42:10,139 - INFO - Processed 21400000 reads so far
2011-05-19 16:42:21,419 - INFO - Processed 21500000 reads so far
2011-05-19 16:42:32,977 - INFO - Processed 21600000 reads so far
2011-05-19 16:42:44,890 - INFO - Processed 21700000 reads so far
2011-05-19 16:42:58,685 - INFO - Processed 21800000 reads so far
2011-05-19 16:43:10,651 - INFO - Processed 21900000 reads so far
2011-05-19 16:43:25,331 - INFO - Processed 22000000 reads so far
2011-05-19 16:43:38,859 - INFO - Processed 22100000 reads so far
2011-05-19 16:43:46,818 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:82990456-103010456
2011-05-19 16:43:50,959 - INFO - Processed 22200000 reads so far
2011-05-19 16:44:05,634 - INFO - Processed 22300000 reads so far
2011-05-19 16:44:16,891 - INFO - Processed 22400000 reads so far
2011-05-19 16:44:30,892 - INFO - Processed 22500000 reads so far
2011-05-19 16:44:42,587 - INFO - Processed 22600000 reads so far
2011-05-19 16:45:01,128 - INFO - Processed 22700000 reads so far
2011-05-19 16:45:15,573 - INFO - Processed 22800000 reads so far
2011-05-19 16:45:27,979 - INFO - Processed 22900000 reads so far
2011-05-19 16:45:38,140 - INFO - Processed 23000000 reads so far
2011-05-19 16:45:50,893 - INFO - Processed 23100000 reads so far
2011-05-19 16:46:01,905 - INFO - Processed 23200000 reads so far
2011-05-19 16:46:16,990 - INFO - Processed 23300000 reads so far
2011-05-19 16:46:33,278 - INFO - Processed 23400000 reads so far
2011-05-19 16:46:41,390 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:102990463-123010463
2011-05-19 16:46:46,637 - INFO - Processed 23500000 reads so far
2011-05-19 16:46:57,301 - INFO - Processed 23600000 reads so far
2011-05-19 16:47:09,092 - INFO - Processed 23700000 reads so far
2011-05-19 16:47:19,395 - INFO - Processed 23800000 reads so far
2011-05-19 16:47:31,924 - INFO - Processed 23900000 reads so far
2011-05-19 16:47:43,711 - INFO - Processed 24000000 reads so far
2011-05-19 16:47:58,426 - INFO - Processed 24100000 reads so far
2011-05-19 16:48:15,375 - INFO - Processed 24200000 reads so far
2011-05-19 16:48:30,631 - INFO - Processed 24300000 reads so far
2011-05-19 16:48:42,323 - INFO - Processed 24400000 reads so far
2011-05-19 16:48:54,139 - INFO - Processed 24500000 reads so far
2011-05-19 16:49:06,592 - INFO - Processed 24600000 reads so far
2011-05-19 16:49:21,823 - INFO - Processed 24700000 reads so far
2011-05-19 16:49:34,750 - INFO - Processed 24800000 reads so far
2011-05-19 16:49:38,223 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:2990007-23010007
2011-05-19 16:49:46,269 - INFO - Processed 24900000 reads so far
2011-05-19 16:49:56,884 - INFO - Processed 25000000 reads so far
2011-05-19 16:50:08,375 - INFO - Processed 25100000 reads so far
2011-05-19 16:50:21,095 - INFO - Processed 25200000 reads so far
2011-05-19 16:50:32,646 - INFO - Processed 25300000 reads so far
2011-05-19 16:50:42,695 - INFO - Processed 25400000 reads so far
2011-05-19 16:50:53,393 - INFO - Processed 25500000 reads so far
2011-05-19 16:51:05,615 - INFO - Processed 25600000 reads so far
2011-05-19 16:51:17,874 - INFO - Processed 25700000 reads so far
2011-05-19 16:51:29,776 - INFO - Processed 25800000 reads so far
2011-05-19 16:51:41,002 - INFO - Processed 25900000 reads so far
2011-05-19 16:51:53,828 - INFO - Processed 26000000 reads so far
2011-05-19 16:52:04,370 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:22990097-43010097
2011-05-19 16:52:07,620 - INFO - Processed 26100000 reads so far
2011-05-19 16:52:18,860 - INFO - Processed 26200000 reads so far
2011-05-19 16:52:34,815 - INFO - Processed 26300000 reads so far
2011-05-19 16:52:46,868 - INFO - Processed 26400000 reads so far
2011-05-19 16:53:02,707 - INFO - Processed 26500000 reads so far
2011-05-19 16:53:14,281 - INFO - Processed 26600000 reads so far
2011-05-19 16:53:26,126 - INFO - Processed 26700000 reads so far
2011-05-19 16:53:43,840 - INFO - Processed 26800000 reads so far
2011-05-19 16:53:58,456 - INFO - Processed 26900000 reads so far
2011-05-19 16:54:12,640 - INFO - Processed 27000000 reads so far
2011-05-19 16:54:23,787 - INFO - Processed 27100000 reads so far
2011-05-19 16:54:34,340 - INFO - Processed 27200000 reads so far
2011-05-19 16:54:48,602 - INFO - Processed 27300000 reads so far
2011-05-19 16:55:02,224 - INFO - Processed 27400000 reads so far
2011-05-19 16:55:07,680 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:42990137-63010137
2011-05-19 16:55:13,513 - INFO - Processed 27500000 reads so far
2011-05-19 16:55:24,591 - INFO - Processed 27600000 reads so far
2011-05-19 16:55:36,041 - INFO - Processed 27700000 reads so far
2011-05-19 16:55:48,485 - INFO - Processed 27800000 reads so far
2011-05-19 16:55:59,962 - INFO - Processed 27900000 reads so far
2011-05-19 16:56:16,654 - INFO - Processed 28000000 reads so far
2011-05-19 16:56:27,028 - INFO - Processed 28100000 reads so far
2011-05-19 16:56:37,980 - INFO - Processed 28200000 reads so far
2011-05-19 16:56:51,618 - INFO - Processed 28300000 reads so far
2011-05-19 16:57:04,663 - INFO - Processed 28400000 reads so far
2011-05-19 16:57:16,646 - INFO - Processed 28500000 reads so far
2011-05-19 16:57:29,331 - INFO - Processed 28600000 reads so far
2011-05-19 16:57:42,132 - INFO - Processed 28700000 reads so far
2011-05-19 16:57:54,475 - INFO - Processed 28800000 reads so far
2011-05-19 16:58:06,446 - INFO - Processed 28900000 reads so far
2011-05-19 16:58:11,040 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:62990143-83010143
2011-05-19 16:58:17,926 - INFO - Processed 29000000 reads so far
2011-05-19 16:58:29,930 - INFO - Processed 29100000 reads so far
2011-05-19 16:58:41,601 - INFO - Processed 29200000 reads so far
2011-05-19 16:58:55,466 - INFO - Processed 29300000 reads so far
2011-05-19 16:59:07,120 - INFO - Processed 29400000 reads so far
2011-05-19 16:59:18,536 - INFO - Processed 29500000 reads so far
2011-05-19 16:59:32,013 - INFO - Processed 29600000 reads so far
2011-05-19 16:59:43,495 - INFO - Processed 29700000 reads so far
2011-05-19 16:59:54,394 - INFO - Processed 29800000 reads so far
2011-05-19 17:00:08,346 - INFO - Processed 29900000 reads so far
2011-05-19 17:00:19,092 - INFO - Processed 30000000 reads so far
2011-05-19 17:00:30,661 - INFO - Processed 30100000 reads so far
2011-05-19 17:00:43,183 - INFO - Processed 30200000 reads so far
2011-05-19 17:00:48,059 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:82990163-103010163
2011-05-19 17:00:55,982 - INFO - Processed 30300000 reads so far
2011-05-19 17:01:09,253 - INFO - Processed 30400000 reads so far
2011-05-19 17:01:24,624 - INFO - Processed 30500000 reads so far
2011-05-19 17:01:41,240 - INFO - Processed 30600000 reads so far
2011-05-19 17:01:54,105 - INFO - Processed 30700000 reads so far
2011-05-19 17:02:08,030 - INFO - Processed 30800000 reads so far
2011-05-19 17:02:20,692 - INFO - Processed 30900000 reads so far
2011-05-19 17:02:32,332 - INFO - Processed 31000000 reads so far
2011-05-19 17:02:41,744 - INFO - Processed 31100000 reads so far
2011-05-19 17:02:50,021 - INFO - Processed 31200000 reads so far
2011-05-19 17:03:01,269 - INFO - Processed 31300000 reads so far
2011-05-19 17:03:12,629 - INFO - Processed 31400000 reads so far
2011-05-19 17:03:23,107 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:102990164-123010164
2011-05-19 17:03:28,222 - INFO - Processed 31500000 reads so far
2011-05-19 17:03:42,934 - INFO - Processed 31600000 reads so far
2011-05-19 17:03:58,893 - INFO - Processed 31700000 reads so far
2011-05-19 17:04:11,806 - INFO - Processed 31800000 reads so far
2011-05-19 17:04:23,981 - INFO - Processed 31900000 reads so far
2011-05-19 17:04:36,246 - INFO - Processed 32000000 reads so far
2011-05-19 17:04:50,671 - INFO - Processed 32100000 reads so far
2011-05-19 17:05:03,369 - INFO - Processed 32200000 reads so far
2011-05-19 17:05:15,482 - INFO - Processed 32300000 reads so far
2011-05-19 17:05:24,414 - INFO - Processed 32400000 reads so far
2011-05-19 17:05:34,768 - INFO - Processed 32500000 reads so far
2011-05-19 17:05:51,683 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13_random:0-20010000
2011-05-19 17:05:53,116 - INFO - Processed 32600000 reads so far
2011-05-19 17:05:53,309 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:2990027-23010027
2011-05-19 17:06:09,425 - INFO - Processed 32700000 reads so far
2011-05-19 17:06:22,782 - INFO - Processed 32800000 reads so far
2011-05-19 17:06:31,019 - INFO - Processed 32900000 reads so far
2011-05-19 17:06:40,322 - INFO - Processed 33000000 reads so far
2011-05-19 17:06:51,890 - INFO - Processed 33100000 reads so far
2011-05-19 17:07:05,513 - INFO - Processed 33200000 reads so far
2011-05-19 17:07:18,481 - INFO - Processed 33300000 reads so far
2011-05-19 17:07:29,283 - INFO - Processed 33400000 reads so far
2011-05-19 17:07:42,456 - INFO - Processed 33500000 reads so far
2011-05-19 17:07:56,879 - INFO - Processed 33600000 reads so far
2011-05-19 17:08:08,018 - INFO - Processed 33700000 reads so far
2011-05-19 17:08:21,093 - INFO - Processed 33800000 reads so far
2011-05-19 17:08:32,301 - INFO - Processed 33900000 reads so far
2011-05-19 17:08:37,074 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:22990076-43010076
2011-05-19 17:08:43,255 - INFO - Processed 34000000 reads so far
2011-05-19 17:08:53,701 - INFO - Processed 34100000 reads so far
2011-05-19 17:09:04,203 - INFO - Processed 34200000 reads so far
2011-05-19 17:09:15,226 - INFO - Processed 34300000 reads so far
2011-05-19 17:09:25,384 - INFO - Processed 34400000 reads so far
2011-05-19 17:09:35,737 - INFO - Processed 34500000 reads so far
2011-05-19 17:09:44,868 - INFO - Processed 34600000 reads so far
2011-05-19 17:09:58,187 - INFO - Processed 34700000 reads so far
2011-05-19 17:10:11,386 - INFO - Processed 34800000 reads so far
2011-05-19 17:10:23,479 - INFO - Processed 34900000 reads so far
2011-05-19 17:10:34,228 - INFO - Processed 35000000 reads so far
2011-05-19 17:10:46,451 - INFO - Processed 35100000 reads so far
2011-05-19 17:10:57,513 - INFO - Processed 35200000 reads so far
2011-05-19 17:11:08,345 - INFO - Processed 35300000 reads so far
2011-05-19 17:11:11,949 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:42990104-63010104
2011-05-19 17:11:17,911 - INFO - Processed 35400000 reads so far
2011-05-19 17:11:27,024 - INFO - Processed 35500000 reads so far
2011-05-19 17:11:39,024 - INFO - Processed 35600000 reads so far
2011-05-19 17:11:50,152 - INFO - Processed 35700000 reads so far
2011-05-19 17:12:03,518 - INFO - Processed 35800000 reads so far
2011-05-19 17:12:14,056 - INFO - Processed 35900000 reads so far
2011-05-19 17:12:25,540 - INFO - Processed 36000000 reads so far
2011-05-19 17:12:38,041 - INFO - Processed 36100000 reads so far
2011-05-19 17:12:49,590 - INFO - Processed 36200000 reads so far
2011-05-19 17:13:02,972 - INFO - Processed 36300000 reads so far
2011-05-19 17:13:15,442 - INFO - Processed 36400000 reads so far
2011-05-19 17:13:27,585 - INFO - Processed 36500000 reads so far
2011-05-19 17:13:42,443 - INFO - Processed 36600000 reads so far
2011-05-19 17:13:55,706 - INFO - Processed 36700000 reads so far
2011-05-19 17:14:08,955 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:62990117-83010117
2011-05-19 17:14:09,459 - INFO - Processed 36800000 reads so far
2011-05-19 17:14:25,221 - INFO - Processed 36900000 reads so far
2011-05-19 17:14:37,134 - INFO - Processed 37000000 reads so far
2011-05-19 17:14:48,176 - INFO - Processed 37100000 reads so far
2011-05-19 17:15:01,100 - INFO - Processed 37200000 reads so far
2011-05-19 17:15:12,610 - INFO - Processed 37300000 reads so far
2011-05-19 17:15:24,742 - INFO - Processed 37400000 reads so far
2011-05-19 17:15:36,111 - INFO - Processed 37500000 reads so far
2011-05-19 17:15:45,387 - INFO - Processed 37600000 reads so far
2011-05-19 17:15:55,914 - INFO - Processed 37700000 reads so far
2011-05-19 17:16:07,200 - INFO - Processed 37800000 reads so far
2011-05-19 17:16:18,610 - INFO - Processed 37900000 reads so far
2011-05-19 17:16:36,392 - INFO - Processed 38000000 reads so far
2011-05-19 17:16:47,599 - INFO - Processed 38100000 reads so far
2011-05-19 17:17:00,094 - INFO - Processed 38200000 reads so far
2011-05-19 17:17:00,237 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:82990154-103010154
2011-05-19 17:17:12,998 - INFO - Processed 38300000 reads so far
2011-05-19 17:17:23,734 - INFO - Processed 38400000 reads so far
2011-05-19 17:17:35,261 - INFO - Processed 38500000 reads so far
2011-05-19 17:17:46,626 - INFO - Processed 38600000 reads so far
2011-05-19 17:17:59,298 - INFO - Processed 38700000 reads so far
2011-05-19 17:18:15,912 - INFO - Processed 38800000 reads so far
2011-05-19 17:18:27,072 - INFO - Processed 38900000 reads so far
2011-05-19 17:18:39,942 - INFO - Processed 39000000 reads so far
2011-05-19 17:18:52,898 - INFO - Processed 39100000 reads so far
2011-05-19 17:19:03,497 - INFO - Processed 39200000 reads so far
2011-05-19 17:19:07,587 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:102990205-123010205
2011-05-19 17:19:14,483 - INFO - Processed 39300000 reads so far
2011-05-19 17:19:27,930 - INFO - Processed 39400000 reads so far
2011-05-19 17:19:38,432 - INFO - Processed 39500000 reads so far
2011-05-19 17:19:48,141 - INFO - Processed 39600000 reads so far
2011-05-19 17:20:00,274 - INFO - Processed 39700000 reads so far
2011-05-19 17:20:09,999 - INFO - Processed 39800000 reads so far
2011-05-19 17:20:21,591 - INFO - Processed 39900000 reads so far
2011-05-19 17:20:36,649 - INFO - Processed 40000000 reads so far
2011-05-19 17:20:49,824 - INFO - Processed 40100000 reads so far
2011-05-19 17:21:01,087 - INFO - Processed 40200000 reads so far
2011-05-19 17:21:14,651 - INFO - Processed 40300000 reads so far
2011-05-19 17:21:25,998 - INFO - Processed 40400000 reads so far
2011-05-19 17:21:32,117 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:122990209-143010209
2011-05-19 17:21:39,233 - INFO - Processed 40500000 reads so far
2011-05-19 17:21:48,336 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:2990005-23010005
2011-05-19 17:21:51,377 - INFO - Processed 40600000 reads so far
2011-05-19 17:22:04,846 - INFO - Processed 40700000 reads so far
2011-05-19 17:22:19,203 - INFO - Processed 40800000 reads so far
2011-05-19 17:22:29,140 - INFO - Processed 40900000 reads so far
2011-05-19 17:22:37,617 - INFO - Processed 41000000 reads so far
2011-05-19 17:22:48,183 - INFO - Processed 41100000 reads so far
2011-05-19 17:22:56,504 - INFO - Processed 41200000 reads so far
2011-05-19 17:23:10,714 - INFO - Processed 41300000 reads so far
2011-05-19 17:23:20,897 - INFO - Processed 41400000 reads so far
2011-05-19 17:23:34,601 - INFO - Processed 41500000 reads so far
2011-05-19 17:23:47,214 - INFO - Processed 41600000 reads so far
2011-05-19 17:24:02,618 - INFO - Processed 41700000 reads so far
2011-05-19 17:24:07,986 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:22990028-43010028
2011-05-19 17:24:14,470 - INFO - Processed 41800000 reads so far
2011-05-19 17:24:26,300 - INFO - Processed 41900000 reads so far
2011-05-19 17:24:40,204 - INFO - Processed 42000000 reads so far
2011-05-19 17:24:51,598 - INFO - Processed 42100000 reads so far
2011-05-19 17:25:03,352 - INFO - Processed 42200000 reads so far
2011-05-19 17:25:17,340 - INFO - Processed 42300000 reads so far
2011-05-19 17:25:29,255 - INFO - Processed 42400000 reads so far
2011-05-19 17:25:45,953 - INFO - Processed 42500000 reads so far
2011-05-19 17:25:59,262 - INFO - Processed 42600000 reads so far
2011-05-19 17:26:08,914 - INFO - Processed 42700000 reads so far
2011-05-19 17:26:19,202 - INFO - Processed 42800000 reads so far
2011-05-19 17:26:30,873 - INFO - Processed 42900000 reads so far
2011-05-19 17:26:42,313 - INFO - Processed 43000000 reads so far
2011-05-19 17:26:48,652 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:42990040-63010040
2011-05-19 17:26:54,999 - INFO - Processed 43100000 reads so far
2011-05-19 17:27:09,133 - INFO - Processed 43200000 reads so far
2011-05-19 17:27:21,349 - INFO - Processed 43300000 reads so far
2011-05-19 17:27:33,433 - INFO - Processed 43400000 reads so far
2011-05-19 17:27:44,405 - INFO - Processed 43500000 reads so far
2011-05-19 17:27:55,098 - INFO - Processed 43600000 reads so far
2011-05-19 17:28:05,694 - INFO - Processed 43700000 reads so far
2011-05-19 17:28:18,874 - INFO - Processed 43800000 reads so far
2011-05-19 17:28:32,330 - INFO - Processed 43900000 reads so far
2011-05-19 17:28:42,344 - INFO - Processed 44000000 reads so far
2011-05-19 17:28:51,197 - INFO - Processed 44100000 reads so far
2011-05-19 17:29:00,573 - INFO - Processed 44200000 reads so far
2011-05-19 17:29:07,645 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:62990076-83010076
2011-05-19 17:29:14,343 - INFO - Processed 44300000 reads so far
2011-05-19 17:29:28,151 - INFO - Processed 44400000 reads so far
2011-05-19 17:29:39,905 - INFO - Processed 44500000 reads so far
2011-05-19 17:29:53,745 - INFO - Processed 44600000 reads so far
2011-05-19 17:30:05,995 - INFO - Processed 44700000 reads so far
2011-05-19 17:30:16,904 - INFO - Processed 44800000 reads so far
2011-05-19 17:30:31,983 - INFO - Processed 44900000 reads so far
2011-05-19 17:30:42,658 - INFO - Processed 45000000 reads so far
2011-05-19 17:30:53,173 - INFO - Processed 45100000 reads so far
2011-05-19 17:31:06,847 - INFO - Processed 45200000 reads so far
2011-05-19 17:31:17,959 - INFO - Processed 45300000 reads so far
2011-05-19 17:31:34,040 - INFO - Processed 45400000 reads so far
2011-05-19 17:31:45,480 - INFO - Processed 45500000 reads so far
2011-05-19 17:31:56,254 - INFO - Processed 45600000 reads so far
2011-05-19 17:32:09,252 - INFO - Processed 45700000 reads so far
2011-05-19 17:32:13,819 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:82990083-103010083
2011-05-19 17:32:20,926 - INFO - Processed 45800000 reads so far
2011-05-19 17:32:33,608 - INFO - Processed 45900000 reads so far
2011-05-19 17:32:50,006 - INFO - Processed 46000000 reads so far
2011-05-19 17:33:01,890 - INFO - Processed 46100000 reads so far
2011-05-19 17:33:14,235 - INFO - Processed 46200000 reads so far
2011-05-19 17:33:26,467 - INFO - Processed 46300000 reads so far
2011-05-19 17:33:37,995 - INFO - Processed 46400000 reads so far
2011-05-19 17:33:50,140 - INFO - Processed 46500000 reads so far
2011-05-19 17:34:01,816 - INFO - Processed 46600000 reads so far
2011-05-19 17:34:15,907 - INFO - Processed 46700000 reads so far
2011-05-19 17:34:27,024 - INFO - Processed 46800000 reads so far
2011-05-19 17:34:39,258 - INFO - Processed 46900000 reads so far
2011-05-19 17:34:52,132 - INFO - Processed 47000000 reads so far
2011-05-19 17:35:04,264 - INFO - Processed 47100000 reads so far
2011-05-19 17:35:16,766 - INFO - Processed 47200000 reads so far
2011-05-19 17:35:20,190 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:102990138-123010138
2011-05-19 17:35:23,761 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16:2990032-23010032
2011-05-19 17:35:27,963 - INFO - Processed 47300000 reads so far
2011-05-19 17:35:41,076 - INFO - Processed 47400000 reads so far
2011-05-19 17:35:52,570 - INFO - Processed 47500000 reads so far
2011-05-19 17:36:05,380 - INFO - Processed 47600000 reads so far
2011-05-19 17:36:19,625 - INFO - Processed 47700000 reads so far
2011-05-19 17:36:31,123 - INFO - Processed 47800000 reads so far
2011-05-19 17:36:41,705 - INFO - Processed 47900000 reads so far
2011-05-19 17:36:52,108 - INFO - Processed 48000000 reads so far
2011-05-19 17:37:05,417 - INFO - Processed 48100000 reads so far
2011-05-19 17:37:17,151 - INFO - Processed 48200000 reads so far
2011-05-19 17:37:29,000 - INFO - Processed 48300000 reads so far
2011-05-19 17:37:41,890 - INFO - Processed 48400000 reads so far
2011-05-19 17:37:49,369 - INFO - Processed 48500000 reads so far
2011-05-19 17:37:59,724 - INFO - Processed 48600000 reads so far
2011-05-19 17:38:07,182 - INFO - Processed 48700000 reads so far
2011-05-19 17:38:14,028 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16:22990053-43010053
2011-05-19 17:38:16,560 - INFO - Processed 48800000 reads so far
2011-05-19 17:38:31,467 - INFO - Processed 48900000 reads so far
2011-05-19 17:38:49,789 - INFO - Processed 49000000 reads so far
2011-05-19 17:39:02,283 - INFO - Processed 49100000 reads so far
2011-05-19 17:39:17,978 - INFO - Processed 49200000 reads so far
2011-05-19 17:39:29,647 - INFO - Processed 49300000 reads so far
2011-05-19 17:39:40,622 - INFO - Processed 49400000 reads so far
2011-05-19 17:39:53,963 - INFO - Processed 49500000 reads so far
2011-05-19 17:40:05,266 - INFO - Processed 49600000 reads so far
2011-05-19 17:40:16,496 - INFO - Processed 49700000 reads so far
2011-05-19 17:40:29,862 - INFO - Processed 49800000 reads so far
2011-05-19 17:40:41,091 - INFO - Processed 49900000 reads so far
2011-05-19 17:40:56,425 - INFO - Processed 50000000 reads so far
2011-05-19 17:41:08,006 - INFO - Processed 50100000 reads so far
2011-05-19 17:41:10,509 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16:42990064-63010064
2011-05-19 17:41:19,490 - INFO - Processed 50200000 reads so far
2011-05-19 17:41:35,190 - INFO - Processed 50300000 reads so far
2011-05-19 17:41:46,888 - INFO - Processed 50400000 reads so far
2011-05-19 17:42:00,141 - INFO - Processed 50500000 reads so far
2011-05-19 17:42:11,184 - INFO - Processed 50600000 reads so far
2011-05-19 17:42:19,662 - INFO - Processed 50700000 reads so far
2011-05-19 17:42:31,291 - INFO - Processed 50800000 reads so far
2011-05-19 17:42:45,378 - INFO - Processed 50900000 reads so far
2011-05-19 17:42:57,188 - INFO - Processed 51000000 reads so far
2011-05-19 17:43:11,082 - INFO - Processed 51100000 reads so far
2011-05-19 17:43:25,053 - INFO - Processed 51200000 reads so far
2011-05-19 17:43:36,498 - INFO - Processed 51300000 reads so far
2011-05-19 17:43:36,983 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16:62990112-83010112
2011-05-19 17:43:47,453 - INFO - Processed 51400000 reads so far
2011-05-19 17:43:59,685 - INFO - Processed 51500000 reads so far
2011-05-19 17:44:12,740 - INFO - Processed 51600000 reads so far
2011-05-19 17:44:23,905 - INFO - Processed 51700000 reads so far
2011-05-19 17:44:36,318 - INFO - Processed 51800000 reads so far
2011-05-19 17:44:45,658 - INFO - Processed 51900000 reads so far
2011-05-19 17:44:57,553 - INFO - Processed 52000000 reads so far
2011-05-19 17:45:06,711 - INFO - Processed 52100000 reads so far
2011-05-19 17:45:14,697 - INFO - Processed 52200000 reads so far
2011-05-19 17:45:24,173 - INFO - Processed 52300000 reads so far
2011-05-19 17:45:30,956 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16:82990128-103010128
2011-05-19 17:45:33,701 - INFO - Processed 52400000 reads so far
2011-05-19 17:45:45,467 - INFO - Processed 52500000 reads so far
2011-05-19 17:45:57,490 - INFO - Processed 52600000 reads so far
2011-05-19 17:46:09,393 - INFO - Processed 52700000 reads so far
2011-05-19 17:46:20,781 - INFO - Processed 52800000 reads so far
2011-05-19 17:46:34,324 - INFO - Processed 52900000 reads so far
2011-05-19 17:46:45,505 - INFO - Processed 53000000 reads so far
2011-05-19 17:46:57,162 - INFO - Processed 53100000 reads so far
2011-05-19 17:47:08,771 - INFO - Processed 53200000 reads so far
2011-05-19 17:47:18,531 - INFO - Processed 53300000 reads so far
2011-05-19 17:47:31,269 - INFO - Processed 53400000 reads so far
2011-05-19 17:47:40,443 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16_random:0-20010000
2011-05-19 17:47:40,474 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17:2989976-23009976
2011-05-19 17:47:45,458 - INFO - Processed 53500000 reads so far
2011-05-19 17:47:56,605 - INFO - Processed 53600000 reads so far
2011-05-19 17:48:06,877 - INFO - Processed 53700000 reads so far
2011-05-19 17:48:19,841 - INFO - Processed 53800000 reads so far
2011-05-19 17:48:32,860 - INFO - Processed 53900000 reads so far
2011-05-19 17:48:44,747 - INFO - Processed 54000000 reads so far
2011-05-19 17:48:57,391 - INFO - Processed 54100000 reads so far
2011-05-19 17:49:08,681 - INFO - Processed 54200000 reads so far
2011-05-19 17:49:21,249 - INFO - Processed 54300000 reads so far
2011-05-19 17:49:33,681 - INFO - Processed 54400000 reads so far
2011-05-19 17:49:47,536 - INFO - Processed 54500000 reads so far
2011-05-19 17:50:01,679 - INFO - Processed 54600000 reads so far
2011-05-19 17:50:13,945 - INFO - Processed 54700000 reads so far
2011-05-19 17:50:24,805 - INFO - Processed 54800000 reads so far
2011-05-19 17:50:33,727 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17:22990002-43010002
2011-05-19 17:50:38,838 - INFO - Processed 54900000 reads so far
2011-05-19 17:50:51,225 - INFO - Processed 55000000 reads so far
2011-05-19 17:51:02,898 - INFO - Processed 55100000 reads so far
2011-05-19 17:51:16,870 - INFO - Processed 55200000 reads so far
2011-05-19 17:51:29,333 - INFO - Processed 55300000 reads so far
2011-05-19 17:51:41,381 - INFO - Processed 55400000 reads so far
2011-05-19 17:51:54,363 - INFO - Processed 55500000 reads so far
2011-05-19 17:52:05,231 - INFO - Processed 55600000 reads so far
2011-05-19 17:52:16,180 - INFO - Processed 55700000 reads so far
2011-05-19 17:52:28,520 - INFO - Processed 55800000 reads so far
2011-05-19 17:52:40,732 - INFO - Processed 55900000 reads so far
2011-05-19 17:52:50,940 - INFO - Processed 56000000 reads so far
2011-05-19 17:53:04,667 - INFO - Processed 56100000 reads so far
2011-05-19 17:53:14,563 - INFO - Processed 56200000 reads so far
2011-05-19 17:53:25,861 - INFO - Processed 56300000 reads so far
2011-05-19 17:53:26,330 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17:42990053-63010053
2011-05-19 17:53:36,275 - INFO - Processed 56400000 reads so far
2011-05-19 17:53:46,504 - INFO - Processed 56500000 reads so far
2011-05-19 17:53:55,626 - INFO - Processed 56600000 reads so far
2011-05-19 17:54:06,604 - INFO - Processed 56700000 reads so far
2011-05-19 17:54:18,236 - INFO - Processed 56800000 reads so far
2011-05-19 17:54:27,626 - INFO - Processed 56900000 reads so far
2011-05-19 17:54:38,326 - INFO - Processed 57000000 reads so far
2011-05-19 17:54:50,799 - INFO - Processed 57100000 reads so far
2011-05-19 17:55:00,574 - INFO - Processed 57200000 reads so far
2011-05-19 17:55:11,487 - INFO - Processed 57300000 reads so far
2011-05-19 17:55:24,203 - INFO - Processed 57400000 reads so far
2011-05-19 17:55:35,522 - INFO - Processed 57500000 reads so far
2011-05-19 17:55:48,101 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17:62990089-83010089
2011-05-19 17:55:48,199 - INFO - Processed 57600000 reads so far
2011-05-19 17:55:59,426 - INFO - Processed 57700000 reads so far
2011-05-19 17:56:14,024 - INFO - Processed 57800000 reads so far
2011-05-19 17:56:25,636 - INFO - Processed 57900000 reads so far
2011-05-19 17:56:35,018 - INFO - Processed 58000000 reads so far
2011-05-19 17:56:41,999 - INFO - Processed 58100000 reads so far
2011-05-19 17:56:53,426 - INFO - Processed 58200000 reads so far
2011-05-19 17:57:05,243 - INFO - Processed 58300000 reads so far
2011-05-19 17:57:12,764 - INFO - Processed 58400000 reads so far
2011-05-19 17:57:21,871 - INFO - Processed 58500000 reads so far
2011-05-19 17:57:33,290 - INFO - Processed 58600000 reads so far
2011-05-19 17:57:42,083 - INFO - Processed 58700000 reads so far
2011-05-19 17:57:49,827 - INFO - Processed 58800000 reads so far
2011-05-19 17:57:59,800 - INFO - Processed 58900000 reads so far
2011-05-19 17:58:06,396 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17:82990157-103010157
2011-05-19 17:58:11,101 - INFO - Processed 59000000 reads so far
2011-05-19 17:58:21,829 - INFO - Processed 59100000 reads so far
2011-05-19 17:58:29,791 - INFO - Processed 59200000 reads so far
2011-05-19 17:58:36,765 - INFO - Processed 59300000 reads so far
2011-05-19 17:58:45,890 - INFO - Processed 59400000 reads so far
2011-05-19 17:58:53,929 - INFO - Processed 59500000 reads so far
2011-05-19 17:59:04,497 - INFO - Processed 59600000 reads so far
2011-05-19 17:59:13,890 - INFO - Processed 59700000 reads so far
2011-05-19 17:59:18,383 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17_random:0-20010032
2011-05-19 17:59:23,506 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr18:2990000-23010000
2011-05-19 17:59:25,845 - INFO - Processed 59800000 reads so far
2011-05-19 17:59:35,336 - INFO - Processed 59900000 reads so far
2011-05-19 17:59:45,689 - INFO - Processed 60000000 reads so far
2011-05-19 17:59:57,599 - INFO - Processed 60100000 reads so far
2011-05-19 18:00:04,987 - INFO - Processed 60200000 reads so far
2011-05-19 18:00:12,252 - INFO - Processed 60300000 reads so far
2011-05-19 18:00:21,127 - INFO - Processed 60400000 reads so far
2011-05-19 18:00:30,846 - INFO - Processed 60500000 reads so far
2011-05-19 18:00:39,140 - INFO - Processed 60600000 reads so far
2011-05-19 18:00:50,191 - INFO - Processed 60700000 reads so far
2011-05-19 18:01:01,751 - INFO - Processed 60800000 reads so far
2011-05-19 18:01:12,185 - INFO - Processed 60900000 reads so far
2011-05-19 18:01:21,227 - INFO - Processed 61000000 reads so far
2011-05-19 18:01:31,570 - INFO - Processed 61100000 reads so far
2011-05-19 18:01:35,897 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr18:22990003-43010003
2011-05-19 18:01:41,568 - INFO - Processed 61200000 reads so far
2011-05-19 18:01:51,670 - INFO - Processed 61300000 reads so far
2011-05-19 18:02:03,908 - INFO - Processed 61400000 reads so far
2011-05-19 18:02:16,893 - INFO - Processed 61500000 reads so far
2011-05-19 18:02:27,344 - INFO - Processed 61600000 reads so far
2011-05-19 18:02:36,191 - INFO - Processed 61700000 reads so far
2011-05-19 18:02:45,336 - INFO - Processed 61800000 reads so far
2011-05-19 18:02:55,335 - INFO - Processed 61900000 reads so far
2011-05-19 18:03:05,110 - INFO - Processed 62000000 reads so far
2011-05-19 18:03:15,008 - INFO - Processed 62100000 reads so far
2011-05-19 18:03:24,752 - INFO - Processed 62200000 reads so far
2011-05-19 18:03:34,696 - INFO - Processed 62300000 reads so far
2011-05-19 18:03:45,284 - INFO - Processed 62400000 reads so far
2011-05-19 18:03:50,681 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr18:42990020-63010020
2011-05-19 18:03:54,935 - INFO - Processed 62500000 reads so far
2011-05-19 18:04:03,852 - INFO - Processed 62600000 reads so far
2011-05-19 18:04:12,554 - INFO - Processed 62700000 reads so far
2011-05-19 18:04:25,674 - INFO - Processed 62800000 reads so far
2011-05-19 18:04:38,035 - INFO - Processed 62900000 reads so far
2011-05-19 18:04:49,055 - INFO - Processed 63000000 reads so far
2011-05-19 18:05:01,320 - INFO - Processed 63100000 reads so far
2011-05-19 18:05:12,202 - INFO - Processed 63200000 reads so far
2011-05-19 18:05:22,467 - INFO - Processed 63300000 reads so far
2011-05-19 18:05:35,007 - INFO - Processed 63400000 reads so far
2011-05-19 18:05:46,935 - INFO - Processed 63500000 reads so far
2011-05-19 18:05:55,446 - INFO - Processed 63600000 reads so far
2011-05-19 18:06:07,738 - INFO - Processed 63700000 reads so far
2011-05-19 18:06:13,593 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr18:62990029-83010029
2011-05-19 18:06:16,808 - INFO - Processed 63800000 reads so far
2011-05-19 18:06:25,754 - INFO - Processed 63900000 reads so far
2011-05-19 18:06:37,495 - INFO - Processed 64000000 reads so far
2011-05-19 18:06:49,570 - INFO - Processed 64100000 reads so far
2011-05-19 18:06:58,392 - INFO - Processed 64200000 reads so far
2011-05-19 18:07:07,875 - INFO - Processed 64300000 reads so far
2011-05-19 18:07:18,526 - INFO - Processed 64400000 reads so far
2011-05-19 18:07:29,401 - INFO - Processed 64500000 reads so far
2011-05-19 18:07:38,453 - INFO - Processed 64600000 reads so far
2011-05-19 18:07:50,517 - INFO - Processed 64700000 reads so far
2011-05-19 18:08:02,008 - INFO - Processed 64800000 reads so far
2011-05-19 18:08:13,084 - INFO - Processed 64900000 reads so far
2011-05-19 18:08:26,393 - INFO - Processed 65000000 reads so far
2011-05-19 18:08:39,420 - INFO - Processed 65100000 reads so far
2011-05-19 18:08:51,647 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr18:82990038-103010038
2011-05-19 18:08:52,748 - INFO - Processed 65200000 reads so far
2011-05-19 18:09:05,184 - INFO - Processed 65300000 reads so far
2011-05-19 18:09:14,372 - INFO - Processed 65400000 reads so far
2011-05-19 18:09:25,867 - INFO - Processed 65500000 reads so far
2011-05-19 18:09:36,570 - INFO - Processed 65600000 reads so far
2011-05-19 18:09:46,315 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr19:2990154-23010154
2011-05-19 18:09:49,382 - INFO - Processed 65700000 reads so far
2011-05-19 18:10:01,054 - INFO - Processed 65800000 reads so far
2011-05-19 18:10:13,325 - INFO - Processed 65900000 reads so far
2011-05-19 18:10:24,949 - INFO - Processed 66000000 reads so far
2011-05-19 18:10:36,507 - INFO - Processed 66100000 reads so far
2011-05-19 18:10:48,048 - INFO - Processed 66200000 reads so far
2011-05-19 18:11:02,632 - INFO - Processed 66300000 reads so far
2011-05-19 18:11:14,820 - INFO - Processed 66400000 reads so far
2011-05-19 18:11:26,863 - INFO - Processed 66500000 reads so far
2011-05-19 18:11:41,063 - INFO - Processed 66600000 reads so far
2011-05-19 18:11:53,089 - INFO - Processed 66700000 reads so far
2011-05-19 18:12:06,295 - INFO - Processed 66800000 reads so far
2011-05-19 18:12:17,963 - INFO - Processed 66900000 reads so far
2011-05-19 18:12:26,074 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr19:22990179-43010179
2011-05-19 18:12:29,455 - INFO - Processed 67000000 reads so far
2011-05-19 18:12:45,829 - INFO - Processed 67100000 reads so far
2011-05-19 18:12:54,258 - INFO - Processed 67200000 reads so far
2011-05-19 18:13:03,402 - INFO - Processed 67300000 reads so far
2011-05-19 18:13:14,896 - INFO - Processed 67400000 reads so far
2011-05-19 18:13:25,256 - INFO - Processed 67500000 reads so far
2011-05-19 18:13:33,823 - INFO - Processed 67600000 reads so far
2011-05-19 18:13:46,358 - INFO - Processed 67700000 reads so far
2011-05-19 18:13:57,838 - INFO - Processed 67800000 reads so far
2011-05-19 18:14:07,169 - INFO - Processed 67900000 reads so far
2011-05-19 18:14:18,274 - INFO - Processed 68000000 reads so far
2011-05-19 18:14:30,744 - INFO - Processed 68100000 reads so far
2011-05-19 18:14:41,536 - INFO - Processed 68200000 reads so far
2011-05-19 18:14:51,890 - INFO - Processed 68300000 reads so far
2011-05-19 18:14:55,133 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr19:42990189-63010189
2011-05-19 18:15:04,176 - INFO - Processed 68400000 reads so far
2011-05-19 18:15:16,501 - INFO - Processed 68500000 reads so far
2011-05-19 18:15:30,039 - INFO - Processed 68600000 reads so far
2011-05-19 18:15:38,666 - INFO - Processed 68700000 reads so far
2011-05-19 18:15:48,508 - INFO - Processed 68800000 reads so far
2011-05-19 18:16:00,567 - INFO - Processed 68900000 reads so far
2011-05-19 18:16:10,329 - INFO - Processed 69000000 reads so far
2011-05-19 18:16:18,980 - INFO - Processed 69100000 reads so far
2011-05-19 18:16:29,689 - INFO - Processed 69200000 reads so far
2011-05-19 18:16:36,429 - INFO - Processed 69300000 reads so far
2011-05-19 18:16:44,122 - INFO - Processed 69400000 reads so far
2011-05-19 18:16:52,575 - INFO - Processed 69500000 reads so far
2011-05-19 18:17:00,477 - INFO - Processed 69600000 reads so far
2011-05-19 18:17:04,522 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:2989998-23009998
2011-05-19 18:17:13,606 - INFO - Processed 69700000 reads so far
2011-05-19 18:17:22,029 - INFO - Processed 69800000 reads so far
2011-05-19 18:17:31,463 - INFO - Processed 69900000 reads so far
2011-05-19 18:17:39,493 - INFO - Processed 70000000 reads so far
2011-05-19 18:17:48,055 - INFO - Processed 70100000 reads so far
2011-05-19 18:17:57,980 - INFO - Processed 70200000 reads so far
2011-05-19 18:18:05,037 - INFO - Processed 70300000 reads so far
2011-05-19 18:24:14,619 - INFO - Processed 70400000 reads so far
2011-05-19 18:24:26,328 - INFO - Processed 70500000 reads so far
2011-05-19 18:24:37,756 - INFO - Processed 70600000 reads so far
2011-05-19 18:24:50,283 - INFO - Processed 70700000 reads so far
2011-05-19 18:25:02,264 - INFO - Processed 70800000 reads so far
2011-05-19 18:25:08,168 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:22990002-43010002
2011-05-19 18:25:13,608 - INFO - Processed 70900000 reads so far
2011-05-19 18:25:24,998 - INFO - Processed 71000000 reads so far
2011-05-19 18:25:35,378 - INFO - Processed 71100000 reads so far
2011-05-19 18:25:44,328 - INFO - Processed 71200000 reads so far
2011-05-19 18:25:54,765 - INFO - Processed 71300000 reads so far
2011-05-19 18:26:03,914 - INFO - Processed 71400000 reads so far
2011-05-19 18:26:14,188 - INFO - Processed 71500000 reads so far
2011-05-19 18:26:23,337 - INFO - Processed 71600000 reads so far
2011-05-19 18:26:31,502 - INFO - Processed 71700000 reads so far
2011-05-19 18:26:41,481 - INFO - Processed 71800000 reads so far
2011-05-19 18:26:50,706 - INFO - Processed 71900000 reads so far
2011-05-19 18:27:02,666 - INFO - Processed 72000000 reads so far
2011-05-19 18:27:11,103 - INFO - Processed 72100000 reads so far
2011-05-19 18:27:16,788 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:42990017-63010017
2011-05-19 18:27:22,799 - INFO - Processed 72200000 reads so far
2011-05-19 18:27:34,805 - INFO - Processed 72300000 reads so far
2011-05-19 18:27:46,547 - INFO - Processed 72400000 reads so far
2011-05-19 18:27:58,506 - INFO - Processed 72500000 reads so far
2011-05-19 18:28:10,074 - INFO - Processed 72600000 reads so far
2011-05-19 18:28:21,128 - INFO - Processed 72700000 reads so far
2011-05-19 18:28:33,131 - INFO - Processed 72800000 reads so far
2011-05-19 18:28:44,403 - INFO - Processed 72900000 reads so far
2011-05-19 18:28:55,875 - INFO - Processed 73000000 reads so far
2011-05-19 18:29:09,204 - INFO - Processed 73100000 reads so far
2011-05-19 18:29:19,019 - INFO - Processed 73200000 reads so far
2011-05-19 18:29:32,884 - INFO - Processed 73300000 reads so far
2011-05-19 18:29:41,229 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:62990018-83010018
2011-05-19 18:29:41,473 - INFO - Processed 73400000 reads so far
2011-05-19 18:29:51,118 - INFO - Processed 73500000 reads so far
2011-05-19 18:30:00,456 - INFO - Processed 73600000 reads so far
2011-05-19 18:30:10,179 - INFO - Processed 73700000 reads so far
2011-05-19 18:30:19,795 - INFO - Processed 73800000 reads so far
2011-05-19 18:30:30,916 - INFO - Processed 73900000 reads so far
2011-05-19 18:30:41,148 - INFO - Processed 74000000 reads so far
2011-05-19 18:30:51,546 - INFO - Processed 74100000 reads so far
2011-05-19 18:31:00,331 - INFO - Processed 74200000 reads so far
2011-05-19 18:31:10,509 - INFO - Processed 74300000 reads so far
2011-05-19 18:31:23,749 - INFO - Processed 74400000 reads so far
2011-05-19 18:31:35,053 - INFO - Processed 74500000 reads so far
2011-05-19 18:31:44,179 - INFO - Processed 74600000 reads so far
2011-05-19 18:31:56,937 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:82990057-103010057
2011-05-19 18:31:57,347 - INFO - Processed 74700000 reads so far
2011-05-19 18:32:09,251 - INFO - Processed 74800000 reads so far
2011-05-19 18:32:18,780 - INFO - Processed 74900000 reads so far
2011-05-19 18:32:28,562 - INFO - Processed 75000000 reads so far
2011-05-19 18:32:37,653 - INFO - Processed 75100000 reads so far
2011-05-19 18:32:45,745 - INFO - Processed 75200000 reads so far
2011-05-19 18:32:55,156 - INFO - Processed 75300000 reads so far
2011-05-19 18:33:06,390 - INFO - Processed 75400000 reads so far
2011-05-19 18:33:17,811 - INFO - Processed 75500000 reads so far
2011-05-19 18:33:29,031 - INFO - Processed 75600000 reads so far
2011-05-19 18:33:40,072 - INFO - Processed 75700000 reads so far
2011-05-19 18:33:52,106 - INFO - Processed 75800000 reads so far
2011-05-19 18:34:04,968 - INFO - Processed 75900000 reads so far
2011-05-19 18:34:19,549 - INFO - Processed 76000000 reads so far
2011-05-19 18:34:22,015 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:102990091-123010091
2011-05-19 18:34:30,924 - INFO - Processed 76100000 reads so far
2011-05-19 18:34:46,328 - INFO - Processed 76200000 reads so far
2011-05-19 18:34:57,114 - INFO - Processed 76300000 reads so far
2011-05-19 18:35:05,998 - INFO - Processed 76400000 reads so far
2011-05-19 18:35:15,254 - INFO - Processed 76500000 reads so far
2011-05-19 18:35:27,769 - INFO - Processed 76600000 reads so far
2011-05-19 18:35:37,988 - INFO - Processed 76700000 reads so far
2011-05-19 18:35:48,129 - INFO - Processed 76800000 reads so far
2011-05-19 18:36:01,018 - INFO - Processed 76900000 reads so far
2011-05-19 18:36:12,411 - INFO - Processed 77000000 reads so far
2011-05-19 18:36:26,158 - INFO - Processed 77100000 reads so far
2011-05-19 18:36:39,101 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:122990095-143010095
2011-05-19 18:36:39,456 - INFO - Processed 77200000 reads so far
2011-05-19 18:36:46,940 - INFO - Processed 77300000 reads so far
2011-05-19 18:36:55,832 - INFO - Processed 77400000 reads so far
2011-05-19 18:37:05,797 - INFO - Processed 77500000 reads so far
2011-05-19 18:37:15,352 - INFO - Processed 77600000 reads so far
2011-05-19 18:37:23,095 - INFO - Processed 77700000 reads so far
2011-05-19 18:37:35,378 - INFO - Processed 77800000 reads so far
2011-05-19 18:37:44,954 - INFO - Processed 77900000 reads so far
2011-05-19 18:37:53,905 - INFO - Processed 78000000 reads so far
2011-05-19 18:38:02,645 - INFO - Processed 78100000 reads so far
2011-05-19 18:38:11,234 - INFO - Processed 78200000 reads so far
2011-05-19 18:38:22,648 - INFO - Processed 78300000 reads so far
2011-05-19 18:38:30,860 - INFO - Processed 78400000 reads so far
2011-05-19 18:38:39,908 - INFO - Processed 78500000 reads so far
2011-05-19 18:38:50,497 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:142990128-163010128
2011-05-19 18:38:54,361 - INFO - Processed 78600000 reads so far
2011-05-19 18:39:03,017 - INFO - Processed 78700000 reads so far
2011-05-19 18:39:15,240 - INFO - Processed 78800000 reads so far
2011-05-19 18:39:26,967 - INFO - Processed 78900000 reads so far
2011-05-19 18:39:36,379 - INFO - Processed 79000000 reads so far
2011-05-19 18:39:46,129 - INFO - Processed 79100000 reads so far
2011-05-19 18:39:55,624 - INFO - Processed 79200000 reads so far
2011-05-19 18:40:05,667 - INFO - Processed 79300000 reads so far
2011-05-19 18:40:13,826 - INFO - Processed 79400000 reads so far
2011-05-19 18:40:25,289 - INFO - Processed 79500000 reads so far
2011-05-19 18:40:38,238 - INFO - Processed 79600000 reads so far
2011-05-19 18:40:48,277 - INFO - Processed 79700000 reads so far
2011-05-19 18:40:54,579 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:162990175-183010175
2011-05-19 18:40:56,245 - INFO - Processed 79800000 reads so far
2011-05-19 18:41:05,759 - INFO - Processed 79900000 reads so far
2011-05-19 18:41:19,516 - INFO - Processed 80000000 reads so far
2011-05-19 18:41:28,236 - INFO - Processed 80100000 reads so far
2011-05-19 18:41:36,817 - INFO - Processed 80200000 reads so far
2011-05-19 18:41:47,230 - INFO - Processed 80300000 reads so far
2011-05-19 18:41:56,449 - INFO - Processed 80400000 reads so far
2011-05-19 18:42:05,193 - INFO - Processed 80500000 reads so far
2011-05-19 18:42:15,370 - INFO - Processed 80600000 reads so far
2011-05-19 18:42:26,274 - INFO - Processed 80700000 reads so far
2011-05-19 18:42:35,659 - INFO - Processed 80800000 reads so far
2011-05-19 18:42:44,503 - INFO - Processed 80900000 reads so far
2011-05-19 18:42:53,703 - INFO - Processed 81000000 reads so far
2011-05-19 18:43:02,101 - INFO - Processed 81100000 reads so far
2011-05-19 18:43:11,250 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:182990176-203010176
2011-05-19 18:43:12,226 - INFO - Processed 81200000 reads so far
2011-05-19 18:43:22,125 - INFO - Processed 81300000 reads so far
2011-05-19 18:43:33,148 - INFO - Processed 81400000 reads so far
2011-05-19 18:43:43,317 - INFO - Processed 81500000 reads so far
2011-05-19 18:43:55,141 - INFO - Processed 81600000 reads so far
2011-05-19 18:44:07,509 - INFO - Processed 81700000 reads so far
2011-05-19 18:44:16,536 - INFO - Processed 81800000 reads so far
2011-05-19 18:44:27,092 - INFO - Processed 81900000 reads so far
2011-05-19 18:44:36,335 - INFO - Processed 82000000 reads so far
2011-05-19 18:44:49,316 - INFO - Processed 82100000 reads so far
2011-05-19 18:45:00,012 - INFO - Processed 82200000 reads so far
2011-05-19 18:45:03,756 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1_random:0-20010000
2011-05-19 18:45:08,598 - INFO - Processed 82300000 reads so far
2011-05-19 18:45:12,526 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:2990018-23010018
2011-05-19 18:45:19,614 - INFO - Processed 82400000 reads so far
2011-05-19 18:45:29,525 - INFO - Processed 82500000 reads so far
2011-05-19 18:45:40,273 - INFO - Processed 82600000 reads so far
2011-05-19 18:45:50,336 - INFO - Processed 82700000 reads so far
2011-05-19 18:46:01,365 - INFO - Processed 82800000 reads so far
2011-05-19 18:46:08,983 - INFO - Processed 82900000 reads so far
2011-05-19 18:46:16,380 - INFO - Processed 83000000 reads so far
2011-05-19 18:46:27,775 - INFO - Processed 83100000 reads so far
2011-05-19 18:46:40,418 - INFO - Processed 83200000 reads so far
2011-05-19 18:46:52,123 - INFO - Processed 83300000 reads so far
2011-05-19 18:47:05,168 - INFO - Processed 83400000 reads so far
2011-05-19 18:47:17,520 - INFO - Processed 83500000 reads so far
2011-05-19 18:47:28,396 - INFO - Processed 83600000 reads so far
2011-05-19 18:47:39,589 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:22990039-43010039
2011-05-19 18:47:41,055 - INFO - Processed 83700000 reads so far
2011-05-19 18:47:51,295 - INFO - Processed 83800000 reads so far
2011-05-19 18:47:59,676 - INFO - Processed 83900000 reads so far
2011-05-19 18:48:11,080 - INFO - Processed 84000000 reads so far
2011-05-19 18:48:22,020 - INFO - Processed 84100000 reads so far
2011-05-19 18:48:31,429 - INFO - Processed 84200000 reads so far
2011-05-19 18:48:42,026 - INFO - Processed 84300000 reads so far
2011-05-19 18:48:52,728 - INFO - Processed 84400000 reads so far
2011-05-19 18:49:05,178 - INFO - Processed 84500000 reads so far
2011-05-19 18:49:13,235 - INFO - Processed 84600000 reads so far
2011-05-19 18:49:26,445 - INFO - Processed 84700000 reads so far
2011-05-19 18:49:39,584 - INFO - Processed 84800000 reads so far
2011-05-19 18:49:54,334 - INFO - Processed 84900000 reads so far
2011-05-19 18:50:07,912 - INFO - Processed 85000000 reads so far
2011-05-19 18:50:16,473 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:42990064-63010064
2011-05-19 18:50:19,439 - INFO - Processed 85100000 reads so far
2011-05-19 18:50:32,116 - INFO - Processed 85200000 reads so far
2011-05-19 18:50:41,760 - INFO - Processed 85300000 reads so far
2011-05-19 18:50:52,571 - INFO - Processed 85400000 reads so far
2011-05-19 18:51:06,099 - INFO - Processed 85500000 reads so far
2011-05-19 18:51:17,904 - INFO - Processed 85600000 reads so far
2011-05-19 18:51:29,292 - INFO - Processed 85700000 reads so far
2011-05-19 18:51:42,780 - INFO - Processed 85800000 reads so far
2011-05-19 18:51:53,640 - INFO - Processed 85900000 reads so far
2011-05-19 18:52:03,928 - INFO - Processed 86000000 reads so far
2011-05-19 18:52:17,912 - INFO - Processed 86100000 reads so far
2011-05-19 18:52:30,118 - INFO - Processed 86200000 reads so far
2011-05-19 18:52:39,160 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:62990079-83010079
2011-05-19 18:52:41,627 - INFO - Processed 86300000 reads so far
2011-05-19 18:52:54,379 - INFO - Processed 86400000 reads so far
2011-05-19 18:53:04,179 - INFO - Processed 86500000 reads so far
2011-05-19 18:53:15,740 - INFO - Processed 86600000 reads so far
2011-05-19 18:53:29,381 - INFO - Processed 86700000 reads so far
2011-05-19 18:53:43,682 - INFO - Processed 86800000 reads so far
2011-05-19 18:53:53,450 - INFO - Processed 86900000 reads so far
2011-05-19 18:54:04,891 - INFO - Processed 87000000 reads so far
2011-05-19 18:54:16,165 - INFO - Processed 87100000 reads so far
2011-05-19 18:55:03,837 - INFO - Processed 87200000 reads so far
2011-05-19 18:55:14,088 - INFO - Processed 87300000 reads so far
2011-05-19 18:55:22,815 - INFO - Processed 87400000 reads so far
2011-05-19 18:55:35,589 - INFO - Processed 87500000 reads so far
2011-05-19 18:55:43,003 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:82990100-103010100
2011-05-19 18:55:48,358 - INFO - Processed 87600000 reads so far
2011-05-19 18:56:00,393 - INFO - Processed 87700000 reads so far
2011-05-19 18:56:10,172 - INFO - Processed 87800000 reads so far
2011-05-19 18:56:18,557 - INFO - Processed 87900000 reads so far
2011-05-19 18:56:31,544 - INFO - Processed 88000000 reads so far
2011-05-19 18:56:41,339 - INFO - Processed 88100000 reads so far
2011-05-19 18:56:54,580 - INFO - Processed 88200000 reads so far
2011-05-19 18:57:02,723 - INFO - Processed 88300000 reads so far
2011-05-19 18:57:14,803 - INFO - Processed 88400000 reads so far
2011-05-19 18:57:22,541 - INFO - Processed 88500000 reads so far
2011-05-19 18:57:32,461 - INFO - Processed 88600000 reads so far
2011-05-19 18:57:39,522 - INFO - Processed 88700000 reads so far
2011-05-19 18:57:48,973 - INFO - Processed 88800000 reads so far
2011-05-19 18:57:56,516 - INFO - Processed 88900000 reads so far
2011-05-19 18:58:02,412 - INFO - Processed 89000000 reads so far
2011-05-19 18:58:11,404 - INFO - Processed 89100000 reads so far
2011-05-19 18:58:19,605 - INFO - Processed 89200000 reads so far
2011-05-19 18:58:29,298 - INFO - Processed 89300000 reads so far
2011-05-19 18:58:38,651 - INFO - Processed 89400000 reads so far
2011-05-19 18:58:46,038 - INFO - Processed 89500000 reads so far
2011-05-19 18:58:52,469 - INFO - Processed 89600000 reads so far
2011-05-19 18:58:59,197 - INFO - Processed 89700000 reads so far
2011-05-19 18:59:08,209 - INFO - Processed 89800000 reads so far
2011-05-19 18:59:15,344 - INFO - Processed 89900000 reads so far
2011-05-19 18:59:23,087 - INFO - Processed 90000000 reads so far
2011-05-19 18:59:29,529 - INFO - Processed 90100000 reads so far
2011-05-19 18:59:37,026 - INFO - Processed 90200000 reads so far
2011-05-19 18:59:44,733 - INFO - Processed 90300000 reads so far
2011-05-19 18:59:50,830 - INFO - Processed 90400000 reads so far
2011-05-19 18:59:57,089 - INFO - Processed 90500000 reads so far
2011-05-19 19:00:04,073 - INFO - Processed 90600000 reads so far
2011-05-19 19:00:12,163 - INFO - Processed 90700000 reads so far
2011-05-19 19:00:19,841 - INFO - Processed 90800000 reads so far
2011-05-19 19:00:26,639 - INFO - Processed 90900000 reads so far
2011-05-19 19:00:35,496 - INFO - Processed 91000000 reads so far
2011-05-19 19:00:42,767 - INFO - Processed 91100000 reads so far
2011-05-19 19:00:48,899 - INFO - Processed 91200000 reads so far
2011-05-19 19:00:55,994 - INFO - Processed 91300000 reads so far
2011-05-19 19:01:03,558 - INFO - Processed 91400000 reads so far
2011-05-19 19:01:16,556 - INFO - Processed 91500000 reads so far
2011-05-19 19:01:25,882 - INFO - Processed 91600000 reads so far
2011-05-19 19:01:35,473 - INFO - Processed 91700000 reads so far
2011-05-19 19:01:46,362 - INFO - Processed 91800000 reads so far
2011-05-19 19:01:56,452 - INFO - Processed 91900000 reads so far
2011-05-19 19:02:06,847 - INFO - Processed 92000000 reads so far
2011-05-19 19:02:18,063 - INFO - Processed 92100000 reads so far
2011-05-19 19:02:27,940 - INFO - Processed 92200000 reads so far
2011-05-19 19:02:37,284 - INFO - Processed 92300000 reads so far
2011-05-19 19:02:46,681 - INFO - Processed 92400000 reads so far
2011-05-19 19:02:55,802 - INFO - Processed 92500000 reads so far
2011-05-19 19:03:05,259 - INFO - Processed 92600000 reads so far
2011-05-19 19:03:11,268 - INFO - Processed 92700000 reads so far
2011-05-19 19:03:17,977 - INFO - Processed 92800000 reads so far
2011-05-19 19:03:26,846 - INFO - Processed 92900000 reads so far
2011-05-19 19:03:34,604 - INFO - Processed 93000000 reads so far
2011-05-19 19:03:42,980 - INFO - Processed 93100000 reads so far
2011-05-19 19:03:52,061 - INFO - Processed 93200000 reads so far
2011-05-19 19:03:59,127 - INFO - Processed 93300000 reads so far
2011-05-19 19:04:06,755 - INFO - Processed 93400000 reads so far
2011-05-19 19:04:12,661 - INFO - Processed 93500000 reads so far
2011-05-19 19:04:22,065 - INFO - Processed 93600000 reads so far
2011-05-19 19:04:28,564 - INFO - Processed 93700000 reads so far
2011-05-19 19:04:35,726 - INFO - Processed 93800000 reads so far
2011-05-19 19:04:45,793 - INFO - Processed 93900000 reads so far
2011-05-19 19:04:53,637 - INFO - Processed 94000000 reads so far
2011-05-19 19:05:01,958 - INFO - Processed 94100000 reads so far
2011-05-19 19:05:09,106 - INFO - Processed 94200000 reads so far
2011-05-19 19:05:21,192 - INFO - Processed 94300000 reads so far
2011-05-19 19:05:32,917 - INFO - Processed 94400000 reads so far
2011-05-19 19:05:42,242 - INFO - Processed 94500000 reads so far
2011-05-19 19:05:51,653 - INFO - Processed 94600000 reads so far
2011-05-19 19:06:01,738 - INFO - Processed 94700000 reads so far
2011-05-19 19:06:09,871 - INFO - Processed 94800000 reads so far
2011-05-19 19:06:16,890 - INFO - Processed 94900000 reads so far
2011-05-19 19:06:28,044 - INFO - Processed 95000000 reads so far
2011-05-19 19:06:37,543 - INFO - Processed 95100000 reads so far
2011-05-19 19:06:43,764 - INFO - Processed 95200000 reads so far
2011-05-19 19:06:50,051 - INFO - Processed 95300000 reads so far
2011-05-19 19:06:57,289 - INFO - Processed 95400000 reads so far
2011-05-19 19:07:08,705 - INFO - Processed 95500000 reads so far
2011-05-19 19:07:18,222 - INFO - Processed 95600000 reads so far
2011-05-19 19:07:27,079 - INFO - Processed 95700000 reads so far
2011-05-19 19:07:37,594 - INFO - Processed 95800000 reads so far
2011-05-19 19:07:46,443 - INFO - Processed 95900000 reads so far
2011-05-19 19:07:57,786 - INFO - Processed 96000000 reads so far
2011-05-19 19:08:08,209 - INFO - Processed 96100000 reads so far
2011-05-19 19:08:19,581 - INFO - Processed 96200000 reads so far
2011-05-19 19:08:29,644 - INFO - Processed 96300000 reads so far
2011-05-19 19:08:39,212 - INFO - Processed 96400000 reads so far
2011-05-19 19:08:50,448 - INFO - Processed 96500000 reads so far
2011-05-19 19:09:00,153 - INFO - Processed 96600000 reads so far
2011-05-19 19:09:09,772 - INFO - Processed 96700000 reads so far
2011-05-19 19:09:19,867 - INFO - Processed 96800000 reads so far
2011-05-19 19:09:29,184 - INFO - Processed 96900000 reads so far
2011-05-19 19:09:39,073 - INFO - Processed 97000000 reads so far
2011-05-19 19:09:48,093 - INFO - Processed 97100000 reads so far
2011-05-19 19:09:58,689 - INFO - Processed 97200000 reads so far
2011-05-19 19:10:07,645 - INFO - Processed 97300000 reads so far
2011-05-19 19:10:34,416 - INFO - Processed 97400000 reads so far
2011-05-19 19:11:07,489 - INFO - Processed 97500000 reads so far
2011-05-19 19:11:35,451 - INFO - Processed 97600000 reads so far
2011-05-19 19:11:46,443 - INFO - Processed 97700000 reads so far
2011-05-19 19:12:00,458 - INFO - Processed 97800000 reads so far
2011-05-19 19:12:10,886 - INFO - Processed 97900000 reads so far
2011-05-19 19:12:23,201 - INFO - Processed 98000000 reads so far
2011-05-19 19:12:32,354 - INFO - Processed 98100000 reads so far
2011-05-19 19:12:40,585 - INFO - Processed 98200000 reads so far
2011-05-19 19:12:49,762 - INFO - Processed 98300000 reads so far
2011-05-19 19:12:58,322 - INFO - Processed 98400000 reads so far
2011-05-19 19:13:06,802 - INFO - Processed 98500000 reads so far
2011-05-19 19:13:15,671 - INFO - Processed 98600000 reads so far
2011-05-19 19:13:22,354 - INFO - Processed 98700000 reads so far
2011-05-19 19:13:30,450 - INFO - Processed 98800000 reads so far
2011-05-19 19:13:38,647 - INFO - Processed 98900000 reads so far
2011-05-19 19:13:48,671 - INFO - Processed 99000000 reads so far
2011-05-19 19:13:58,538 - INFO - Processed 99100000 reads so far
2011-05-19 19:14:06,261 - INFO - Processed 99200000 reads so far
2011-05-19 19:14:14,367 - INFO - Processed 99300000 reads so far
2011-05-19 19:14:22,465 - INFO - Processed 99400000 reads so far
2011-05-19 19:14:29,895 - INFO - Processed 99500000 reads so far
2011-05-19 19:14:38,604 - INFO - Processed 99600000 reads so far
2011-05-19 19:14:45,608 - INFO - Processed 99700000 reads so far
2011-05-19 19:14:54,882 - INFO - Processed 99800000 reads so far
2011-05-19 19:15:02,152 - INFO - Processed 99900000 reads so far
2011-05-19 19:15:10,360 - INFO - Processed 100000000 reads so far
2011-05-19 19:15:20,371 - INFO - Processed 100100000 reads so far
2011-05-19 19:15:30,000 - INFO - Processed 100200000 reads so far
2011-05-19 19:15:42,510 - INFO - Processed 100300000 reads so far
2011-05-19 19:15:52,953 - INFO - Processed 100400000 reads so far
2011-05-19 19:16:02,913 - INFO - Processed 100500000 reads so far
2011-05-19 19:16:15,843 - INFO - Processed 100600000 reads so far
2011-05-19 19:16:25,856 - INFO - Processed 100700000 reads so far
2011-05-19 19:16:37,269 - INFO - Processed 100800000 reads so far
2011-05-19 19:16:47,962 - INFO - Processed 100900000 reads so far
2011-05-19 19:16:56,040 - INFO - Processed 101000000 reads so far
2011-05-19 19:17:04,783 - INFO - Processed 101100000 reads so far
2011-05-19 19:17:15,888 - INFO - Processed 101200000 reads so far
2011-05-19 19:17:27,852 - INFO - Processed 101300000 reads so far
2011-05-19 19:17:38,225 - INFO - Processed 101400000 reads so far
2011-05-19 19:17:47,710 - INFO - Processed 101500000 reads so far
2011-05-19 19:17:58,954 - INFO - Processed 101600000 reads so far
2011-05-19 19:18:01,572 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:102990105-123010105
2011-05-19 19:18:11,618 - INFO - Processed 101700000 reads so far
2011-05-19 19:18:22,744 - INFO - Processed 101800000 reads so far
2011-05-19 19:18:35,807 - INFO - Processed 101900000 reads so far
2011-05-19 19:18:46,494 - INFO - Processed 102000000 reads so far
2011-05-19 19:18:57,256 - INFO - Processed 102100000 reads so far
2011-05-19 19:19:10,921 - INFO - Processed 102200000 reads so far
2011-05-19 19:19:21,022 - INFO - Processed 102300000 reads so far
2011-05-19 19:19:32,070 - INFO - Processed 102400000 reads so far
2011-05-19 19:19:42,416 - INFO - Processed 102500000 reads so far
2011-05-19 19:19:55,624 - INFO - Processed 102600000 reads so far
2011-05-19 19:20:06,403 - INFO - Processed 102700000 reads so far
2011-05-19 19:20:18,277 - INFO - Processed 102800000 reads so far
2011-05-19 19:20:29,663 - INFO - Processed 102900000 reads so far
2011-05-19 19:20:30,014 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:122990191-143010191
2011-05-19 19:20:40,011 - INFO - Processed 103000000 reads so far
2011-05-19 19:20:52,384 - INFO - Processed 103100000 reads so far
2011-05-19 19:21:03,694 - INFO - Processed 103200000 reads so far
2011-05-19 19:21:14,863 - INFO - Processed 103300000 reads so far
2011-05-19 19:21:27,087 - INFO - Processed 103400000 reads so far
2011-05-19 19:21:39,423 - INFO - Processed 103500000 reads so far
2011-05-19 19:21:47,777 - INFO - Processed 103600000 reads so far
2011-05-19 19:21:56,796 - INFO - Processed 103700000 reads so far
2011-05-19 19:22:08,913 - INFO - Processed 103800000 reads so far
2011-05-19 19:22:19,658 - INFO - Processed 103900000 reads so far
2011-05-19 19:22:27,983 - INFO - Processed 104000000 reads so far
2011-05-19 19:22:38,000 - INFO - Processed 104100000 reads so far
2011-05-19 19:22:49,509 - INFO - Processed 104200000 reads so far
2011-05-19 19:22:55,179 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:142990202-163010202
2011-05-19 19:23:01,638 - INFO - Processed 104300000 reads so far
2011-05-19 19:23:13,918 - INFO - Processed 104400000 reads so far
2011-05-19 19:23:28,277 - INFO - Processed 104500000 reads so far
2011-05-19 19:23:39,501 - INFO - Processed 104600000 reads so far
2011-05-19 19:23:50,686 - INFO - Processed 104700000 reads so far
2011-05-19 19:24:01,927 - INFO - Processed 104800000 reads so far
2011-05-19 19:24:13,067 - INFO - Processed 104900000 reads so far
2011-05-19 19:24:23,877 - INFO - Processed 105000000 reads so far
2011-05-19 19:24:34,053 - INFO - Processed 105100000 reads so far
2011-05-19 19:24:42,551 - INFO - Processed 105200000 reads so far
2011-05-19 19:24:50,805 - INFO - Processed 105300000 reads so far
2011-05-19 19:24:58,666 - INFO - Processed 105400000 reads so far
2011-05-19 19:25:07,103 - INFO - Processed 105500000 reads so far
2011-05-19 19:25:16,841 - INFO - Processed 105600000 reads so far
2011-05-19 19:25:23,197 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:162990205-183010205
2011-05-19 19:25:26,875 - INFO - Processed 105700000 reads so far
2011-05-19 19:25:36,522 - INFO - Processed 105800000 reads so far
2011-05-19 19:25:47,763 - INFO - Processed 105900000 reads so far
2011-05-19 19:25:57,977 - INFO - Processed 106000000 reads so far
2011-05-19 19:26:08,711 - INFO - Processed 106100000 reads so far
2011-05-19 19:26:18,237 - INFO - Processed 106200000 reads so far
2011-05-19 19:26:30,707 - INFO - Processed 106300000 reads so far
2011-05-19 19:26:41,489 - INFO - Processed 106400000 reads so far
2011-05-19 19:26:53,416 - INFO - Processed 106500000 reads so far
2011-05-19 19:27:04,275 - INFO - Processed 106600000 reads so far
2011-05-19 19:27:15,148 - INFO - Processed 106700000 reads so far
2011-05-19 19:27:26,813 - INFO - Processed 106800000 reads so far
2011-05-19 19:27:38,915 - INFO - Processed 106900000 reads so far
2011-05-19 19:27:49,999 - INFO - Processed 107000000 reads so far
2011-05-19 19:28:05,391 - INFO - Processed 107100000 reads so far
2011-05-19 19:28:12,252 - INFO - Processed 107200000 reads so far
2011-05-19 19:28:13,058 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:2989996-23009996
2011-05-19 19:28:25,401 - INFO - Processed 107300000 reads so far
2011-05-19 19:28:33,051 - INFO - Processed 107400000 reads so far
2011-05-19 19:28:45,962 - INFO - Processed 107500000 reads so far
2011-05-19 19:28:56,960 - INFO - Processed 107600000 reads so far
2011-05-19 19:29:08,117 - INFO - Processed 107700000 reads so far
2011-05-19 19:29:22,280 - INFO - Processed 107800000 reads so far
2011-05-19 19:29:33,182 - INFO - Processed 107900000 reads so far
2011-05-19 19:29:44,059 - INFO - Processed 108000000 reads so far
2011-05-19 19:29:56,619 - INFO - Processed 108100000 reads so far
2011-05-19 19:30:08,625 - INFO - Processed 108200000 reads so far
2011-05-19 19:30:21,890 - INFO - Processed 108300000 reads so far
2011-05-19 19:30:31,074 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:22990023-43010023
2011-05-19 19:30:34,697 - INFO - Processed 108400000 reads so far
2011-05-19 19:30:46,564 - INFO - Processed 108500000 reads so far
2011-05-19 19:31:00,078 - INFO - Processed 108600000 reads so far
2011-05-19 19:31:12,159 - INFO - Processed 108700000 reads so far
2011-05-19 19:31:23,413 - INFO - Processed 108800000 reads so far
2011-05-19 19:31:37,971 - INFO - Processed 108900000 reads so far
2011-05-19 19:31:47,098 - INFO - Processed 109000000 reads so far
2011-05-19 19:32:00,858 - INFO - Processed 109100000 reads so far
2011-05-19 19:32:17,651 - INFO - Processed 109200000 reads so far
2011-05-19 19:32:29,365 - INFO - Processed 109300000 reads so far
2011-05-19 19:32:45,444 - INFO - Processed 109400000 reads so far
2011-05-19 19:32:55,921 - INFO - Processed 109500000 reads so far
2011-05-19 19:33:04,845 - INFO - Processed 109600000 reads so far
2011-05-19 19:33:13,367 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:42990032-63010032
2011-05-19 19:33:13,555 - INFO - Processed 109700000 reads so far
2011-05-19 19:33:26,362 - INFO - Processed 109800000 reads so far
2011-05-19 19:33:36,492 - INFO - Processed 109900000 reads so far
2011-05-19 19:33:46,598 - INFO - Processed 110000000 reads so far
2011-05-19 19:33:56,530 - INFO - Processed 110100000 reads so far
2011-05-19 19:34:07,719 - INFO - Processed 110200000 reads so far
2011-05-19 19:34:19,625 - INFO - Processed 110300000 reads so far
2011-05-19 19:34:30,277 - INFO - Processed 110400000 reads so far
2011-05-19 19:34:39,316 - INFO - Processed 110500000 reads so far
2011-05-19 19:34:49,721 - INFO - Processed 110600000 reads so far
2011-05-19 19:34:59,284 - INFO - Processed 110700000 reads so far
2011-05-19 19:35:09,270 - INFO - Processed 110800000 reads so far
2011-05-19 19:35:17,390 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:62990045-83010045
2011-05-19 19:35:19,573 - INFO - Processed 110900000 reads so far
2011-05-19 19:35:29,449 - INFO - Processed 111000000 reads so far
2011-05-19 19:35:38,812 - INFO - Processed 111100000 reads so far
2011-05-19 19:35:47,621 - INFO - Processed 111200000 reads so far
2011-05-19 19:35:56,403 - INFO - Processed 111300000 reads so far
2011-05-19 19:36:06,910 - INFO - Processed 111400000 reads so far
2011-05-19 19:36:17,729 - INFO - Processed 111500000 reads so far
2011-05-19 19:36:30,979 - INFO - Processed 111600000 reads so far
2011-05-19 19:36:43,483 - INFO - Processed 111700000 reads so far
2011-05-19 19:36:54,789 - INFO - Processed 111800000 reads so far
2011-05-19 19:37:07,524 - INFO - Processed 111900000 reads so far
2011-05-19 19:37:17,847 - INFO - Processed 112000000 reads so far
2011-05-19 19:37:23,204 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:82990052-103010052
2011-05-19 19:37:28,647 - INFO - Processed 112100000 reads so far
2011-05-19 19:37:39,932 - INFO - Processed 112200000 reads so far
2011-05-19 19:37:50,528 - INFO - Processed 112300000 reads so far
2011-05-19 19:38:02,412 - INFO - Processed 112400000 reads so far
2011-05-19 19:38:15,279 - INFO - Processed 112500000 reads so far
2011-05-19 19:38:26,582 - INFO - Processed 112600000 reads so far
2011-05-19 19:38:36,739 - INFO - Processed 112700000 reads so far
2011-05-19 19:38:44,159 - INFO - Processed 112800000 reads so far
2011-05-19 19:38:53,546 - INFO - Processed 112900000 reads so far
2011-05-19 19:39:01,626 - INFO - Processed 113000000 reads so far
2011-05-19 19:39:10,745 - INFO - Processed 113100000 reads so far
2011-05-19 19:39:18,042 - INFO - Processed 113200000 reads so far
2011-05-19 19:39:28,557 - INFO - Processed 113300000 reads so far
2011-05-19 19:39:36,612 - INFO - Processed 113400000 reads so far
2011-05-19 19:39:39,243 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:102990076-123010076
2011-05-19 19:39:45,494 - INFO - Processed 113500000 reads so far
2011-05-19 19:39:53,241 - INFO - Processed 113600000 reads so far
2011-05-19 19:40:32,526 - INFO - Processed 113700000 reads so far
2011-05-19 19:40:44,169 - INFO - Processed 113800000 reads so far
2011-05-19 19:40:52,830 - INFO - Processed 113900000 reads so far
2011-05-19 19:41:01,066 - INFO - Processed 114000000 reads so far
2011-05-19 19:41:09,596 - INFO - Processed 114100000 reads so far
2011-05-19 19:41:19,828 - INFO - Processed 114200000 reads so far
2011-05-19 19:41:28,495 - INFO - Processed 114300000 reads so far
2011-05-19 19:41:39,891 - INFO - Processed 114400000 reads so far
2011-05-19 19:41:48,877 - INFO - Processed 114500000 reads so far
2011-05-19 19:41:57,923 - INFO - Processed 114600000 reads so far
2011-05-19 19:42:05,201 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:122990079-143010079
2011-05-19 19:42:07,196 - INFO - Processed 114700000 reads so far
2011-05-19 19:42:17,979 - INFO - Processed 114800000 reads so far
2011-05-19 19:42:28,539 - INFO - Processed 114900000 reads so far
2011-05-19 19:42:39,003 - INFO - Processed 115000000 reads so far
2011-05-19 19:42:53,380 - INFO - Processed 115100000 reads so far
2011-05-19 19:43:05,016 - INFO - Processed 115200000 reads so far
2011-05-19 19:43:15,275 - INFO - Processed 115300000 reads so far
2011-05-19 19:43:24,472 - INFO - Processed 115400000 reads so far
2011-05-19 19:43:32,284 - INFO - Processed 115500000 reads so far
2011-05-19 19:43:41,116 - INFO - Processed 115600000 reads so far
2011-05-19 19:43:49,783 - INFO - Processed 115700000 reads so far
2011-05-19 19:44:03,381 - INFO - Processed 115800000 reads so far
2011-05-19 19:44:15,233 - INFO - Processed 115900000 reads so far
2011-05-19 19:44:20,050 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:142990082-163010082
2011-05-19 19:44:23,968 - INFO - Processed 116000000 reads so far
2011-05-19 19:44:34,259 - INFO - Processed 116100000 reads so far
2011-05-19 19:44:46,250 - INFO - Processed 116200000 reads so far
2011-05-19 19:44:57,325 - INFO - Processed 116300000 reads so far
2011-05-19 19:45:12,446 - INFO - Processed 116400000 reads so far
2011-05-19 19:45:23,659 - INFO - Processed 116500000 reads so far
2011-05-19 19:45:35,174 - INFO - Processed 116600000 reads so far
2011-05-19 19:45:48,409 - INFO - Processed 116700000 reads so far
2011-05-19 19:46:00,246 - INFO - Processed 116800000 reads so far
2011-05-19 19:46:14,112 - INFO - Processed 116900000 reads so far
2011-05-19 19:46:27,628 - INFO - Processed 117000000 reads so far
2011-05-19 19:46:40,426 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3_random:0-20010029
2011-05-19 19:46:40,612 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:2989975-23009975
2011-05-19 19:46:40,960 - INFO - Processed 117100000 reads so far
2011-05-19 19:46:52,980 - INFO - Processed 117200000 reads so far
2011-05-19 19:47:04,467 - INFO - Processed 117300000 reads so far
2011-05-19 19:47:15,686 - INFO - Processed 117400000 reads so far
2011-05-19 19:47:28,718 - INFO - Processed 117500000 reads so far
2011-05-19 19:47:39,806 - INFO - Processed 117600000 reads so far
2011-05-19 19:47:51,062 - INFO - Processed 117700000 reads so far
2011-05-19 19:48:03,868 - INFO - Processed 117800000 reads so far
2011-05-19 19:48:16,347 - INFO - Processed 117900000 reads so far
2011-05-19 19:48:27,877 - INFO - Processed 118000000 reads so far
2011-05-19 19:48:40,750 - INFO - Processed 118100000 reads so far
2011-05-19 19:48:49,666 - INFO - Processed 118200000 reads so far
2011-05-19 19:48:59,268 - INFO - Processed 118300000 reads so far
2011-05-19 19:49:05,681 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:22989991-43009991
2011-05-19 19:49:08,842 - INFO - Processed 118400000 reads so far
2011-05-19 19:49:20,958 - INFO - Processed 118500000 reads so far
2011-05-19 19:49:29,137 - INFO - Processed 118600000 reads so far
2011-05-19 19:49:43,268 - INFO - Processed 118700000 reads so far
2011-05-19 19:49:51,235 - INFO - Processed 118800000 reads so far
2011-05-19 19:49:58,797 - INFO - Processed 118900000 reads so far
2011-05-19 19:50:08,020 - INFO - Processed 119000000 reads so far
2011-05-19 19:50:19,219 - INFO - Processed 119100000 reads so far
2011-05-19 19:50:29,229 - INFO - Processed 119200000 reads so far
2011-05-19 19:50:38,163 - INFO - Processed 119300000 reads so far
2011-05-19 19:50:46,192 - INFO - Processed 119400000 reads so far
2011-05-19 19:50:53,981 - INFO - Processed 119500000 reads so far
2011-05-19 19:50:55,845 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:42989994-63009994
2011-05-19 19:51:07,009 - INFO - Processed 119600000 reads so far
2011-05-19 19:51:18,428 - INFO - Processed 119700000 reads so far
2011-05-19 19:51:29,555 - INFO - Processed 119800000 reads so far
2011-05-19 19:51:39,141 - INFO - Processed 119900000 reads so far
2011-05-19 19:51:52,657 - INFO - Processed 120000000 reads so far
2011-05-19 19:52:03,295 - INFO - Processed 120100000 reads so far
2011-05-19 19:52:11,999 - INFO - Processed 120200000 reads so far
2011-05-19 19:52:22,160 - INFO - Processed 120300000 reads so far
2011-05-19 19:52:32,375 - INFO - Processed 120400000 reads so far
2011-05-19 19:52:43,219 - INFO - Processed 120500000 reads so far
2011-05-19 19:52:53,800 - INFO - Processed 120600000 reads so far
2011-05-19 19:53:04,498 - INFO - Processed 120700000 reads so far
2011-05-19 19:53:16,933 - INFO - Processed 120800000 reads so far
2011-05-19 19:53:25,331 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:62990002-83010002
2011-05-19 19:53:26,292 - INFO - Processed 120900000 reads so far
2011-05-19 19:53:34,652 - INFO - Processed 121000000 reads so far
2011-05-19 19:53:45,896 - INFO - Processed 121100000 reads so far
2011-05-19 19:53:54,726 - INFO - Processed 121200000 reads so far
2011-05-19 19:54:04,053 - INFO - Processed 121300000 reads so far
2011-05-19 19:54:13,585 - INFO - Processed 121400000 reads so far
2011-05-19 19:54:25,597 - INFO - Processed 121500000 reads so far
2011-05-19 19:54:34,659 - INFO - Processed 121600000 reads so far
2011-05-19 19:54:43,723 - INFO - Processed 121700000 reads so far
2011-05-19 19:54:53,314 - INFO - Processed 121800000 reads so far
2011-05-19 19:55:04,378 - INFO - Processed 121900000 reads so far
2011-05-19 19:55:12,916 - INFO - Processed 122000000 reads so far
2011-05-19 19:55:18,157 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:82990027-103010027
2011-05-19 19:55:22,399 - INFO - Processed 122100000 reads so far
2011-05-19 19:55:30,739 - INFO - Processed 122200000 reads so far
2011-05-19 19:55:42,237 - INFO - Processed 122300000 reads so far
2011-05-19 19:55:50,413 - INFO - Processed 122400000 reads so far
2011-05-19 19:55:58,948 - INFO - Processed 122500000 reads so far
2011-05-19 19:56:10,522 - INFO - Processed 122600000 reads so far
2011-05-19 19:56:20,786 - INFO - Processed 122700000 reads so far
2011-05-19 19:56:31,329 - INFO - Processed 122800000 reads so far
2011-05-19 19:56:41,695 - INFO - Processed 122900000 reads so far
2011-05-19 19:56:52,074 - INFO - Processed 123000000 reads so far
2011-05-19 19:57:01,948 - INFO - Processed 123100000 reads so far
2011-05-19 19:57:12,585 - INFO - Processed 123200000 reads so far
2011-05-19 19:57:21,991 - INFO - Processed 123300000 reads so far
2011-05-19 19:57:26,926 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:102990043-123010043
2011-05-19 19:57:32,131 - INFO - Processed 123400000 reads so far
2011-05-19 19:57:43,091 - INFO - Processed 123500000 reads so far
2011-05-19 19:57:55,918 - INFO - Processed 123600000 reads so far
2011-05-19 19:58:05,135 - INFO - Processed 123700000 reads so far
2011-05-19 19:58:14,933 - INFO - Processed 123800000 reads so far
2011-05-19 19:58:24,315 - INFO - Processed 123900000 reads so far
2011-05-19 19:58:37,440 - INFO - Processed 124000000 reads so far
2011-05-19 19:58:46,533 - INFO - Processed 124100000 reads so far
2011-05-19 19:58:59,397 - INFO - Processed 124200000 reads so far
2011-05-19 19:59:11,022 - INFO - Processed 124300000 reads so far
2011-05-19 19:59:21,588 - INFO - Processed 124400000 reads so far
2011-05-19 19:59:30,198 - INFO - Processed 124500000 reads so far
2011-05-19 19:59:44,913 - INFO - Processed 124600000 reads so far
2011-05-19 19:59:50,730 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:122990051-143010051
2011-05-19 19:59:56,433 - INFO - Processed 124700000 reads so far
2011-05-19 20:00:08,320 - INFO - Processed 124800000 reads so far
2011-05-19 20:00:21,563 - INFO - Processed 124900000 reads so far
2011-05-19 20:00:36,402 - INFO - Processed 125000000 reads so far
2011-05-19 20:00:47,785 - INFO - Processed 125100000 reads so far
2011-05-19 20:00:59,754 - INFO - Processed 125200000 reads so far
2011-05-19 20:01:11,052 - INFO - Processed 125300000 reads so far
2011-05-19 20:01:23,952 - INFO - Processed 125400000 reads so far
2011-05-19 20:01:38,711 - INFO - Processed 125500000 reads so far
2011-05-19 20:01:53,831 - INFO - Processed 125600000 reads so far
2011-05-19 20:02:07,517 - INFO - Processed 125700000 reads so far
2011-05-19 20:02:17,952 - INFO - Processed 125800000 reads so far
2011-05-19 20:02:28,712 - INFO - Processed 125900000 reads so far
2011-05-19 20:02:42,639 - INFO - Processed 126000000 reads so far
2011-05-19 20:02:55,034 - INFO - Processed 126100000 reads so far
2011-05-19 20:02:59,980 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:142990110-163010110
2011-05-19 20:03:04,942 - INFO - Processed 126200000 reads so far
2011-05-19 20:03:17,861 - INFO - Processed 126300000 reads so far
2011-05-19 20:03:33,117 - INFO - Processed 126400000 reads so far
2011-05-19 20:03:48,123 - INFO - Processed 126500000 reads so far
2011-05-19 20:04:01,148 - INFO - Processed 126600000 reads so far
2011-05-19 20:04:12,584 - INFO - Processed 126700000 reads so far
2011-05-19 20:04:26,430 - INFO - Processed 126800000 reads so far
2011-05-19 20:04:37,892 - INFO - Processed 126900000 reads so far
2011-05-19 20:04:48,133 - INFO - Processed 127000000 reads so far
2011-05-19 20:04:58,947 - INFO - Processed 127100000 reads so far
2011-05-19 20:05:04,834 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4_random:0-20010028
2011-05-19 20:05:05,661 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:2989999-23009999
2011-05-19 20:05:11,818 - INFO - Processed 127200000 reads so far
2011-05-19 20:05:22,576 - INFO - Processed 127300000 reads so far
2011-05-19 20:05:35,453 - INFO - Processed 127400000 reads so far
2011-05-19 20:05:46,686 - INFO - Processed 127500000 reads so far
2011-05-19 20:05:57,485 - INFO - Processed 127600000 reads so far
2011-05-19 20:06:07,051 - INFO - Processed 127700000 reads so far
2011-05-19 20:06:17,114 - INFO - Processed 127800000 reads so far
2011-05-19 20:06:25,813 - INFO - Processed 127900000 reads so far
2011-05-19 20:06:36,246 - INFO - Processed 128000000 reads so far
2011-05-19 20:06:45,213 - INFO - Processed 128100000 reads so far
2011-05-19 20:06:54,546 - INFO - Processed 128200000 reads so far
2011-05-19 20:07:03,066 - INFO - Processed 128300000 reads so far
2011-05-19 20:07:12,172 - INFO - Processed 128400000 reads so far
2011-05-19 20:07:12,416 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:22990540-43010540
2011-05-19 20:07:25,225 - INFO - Processed 128500000 reads so far
2011-05-19 20:07:36,845 - INFO - Processed 128600000 reads so far
2011-05-19 20:07:47,695 - INFO - Processed 128700000 reads so far
2011-05-19 20:07:59,040 - INFO - Processed 128800000 reads so far
2011-05-19 20:08:10,086 - INFO - Processed 128900000 reads so far
2011-05-19 20:08:22,560 - INFO - Processed 129000000 reads so far
2011-05-19 20:08:33,728 - INFO - Processed 129100000 reads so far
2011-05-19 20:08:45,963 - INFO - Processed 129200000 reads so far
2011-05-19 20:08:59,390 - INFO - Processed 129300000 reads so far
2011-05-19 20:09:10,376 - INFO - Processed 129400000 reads so far
2011-05-19 20:09:22,140 - INFO - Processed 129500000 reads so far
2011-05-19 20:09:34,696 - INFO - Processed 129600000 reads so far
2011-05-19 20:09:46,349 - INFO - Processed 129700000 reads so far
2011-05-19 20:09:57,015 - INFO - Processed 129800000 reads so far
2011-05-19 20:09:59,182 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:42990541-63010541
2011-05-19 20:10:09,955 - INFO - Processed 129900000 reads so far
2011-05-19 20:10:22,215 - INFO - Processed 130000000 reads so far
2011-05-19 20:10:34,803 - INFO - Processed 130100000 reads so far
2011-05-19 20:10:49,160 - INFO - Processed 130200000 reads so far
2011-05-19 20:11:01,995 - INFO - Processed 130300000 reads so far
2011-05-19 20:11:12,926 - INFO - Processed 130400000 reads so far
2011-05-19 20:11:23,814 - INFO - Processed 130500000 reads so far
2011-05-19 20:11:32,356 - INFO - Processed 130600000 reads so far
2011-05-19 20:11:42,247 - INFO - Processed 130700000 reads so far
2011-05-19 20:11:55,222 - INFO - Processed 130800000 reads so far
2011-05-19 20:12:05,371 - INFO - Processed 130900000 reads so far
2011-05-19 20:12:12,034 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:62990552-83010552
2011-05-19 20:12:16,566 - INFO - Processed 131000000 reads so far
2011-05-19 20:12:27,160 - INFO - Processed 131100000 reads so far
2011-05-19 20:12:39,284 - INFO - Processed 131200000 reads so far
2011-05-19 20:12:50,261 - INFO - Processed 131300000 reads so far
2011-05-19 20:13:05,170 - INFO - Processed 131400000 reads so far
2011-05-19 20:13:16,459 - INFO - Processed 131500000 reads so far
2011-05-19 20:13:28,273 - INFO - Processed 131600000 reads so far
2011-05-19 20:13:41,081 - INFO - Processed 131700000 reads so far
2011-05-19 20:13:52,013 - INFO - Processed 131800000 reads so far
2011-05-19 20:14:03,531 - INFO - Processed 131900000 reads so far
2011-05-19 20:14:15,800 - INFO - Processed 132000000 reads so far
2011-05-19 20:14:27,164 - INFO - Processed 132100000 reads so far
2011-05-19 20:14:40,589 - INFO - Processed 132200000 reads so far
2011-05-19 20:14:42,118 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:82990556-103010556
2011-05-19 20:14:52,253 - INFO - Processed 132300000 reads so far
2011-05-19 20:15:03,456 - INFO - Processed 132400000 reads so far
2011-05-19 20:15:16,284 - INFO - Processed 132500000 reads so far
2011-05-19 20:15:27,404 - INFO - Processed 132600000 reads so far
2011-05-19 20:15:36,586 - INFO - Processed 132700000 reads so far
2011-05-19 20:15:47,642 - INFO - Processed 132800000 reads so far
2011-05-19 20:16:05,896 - INFO - Processed 132900000 reads so far
2011-05-19 20:16:17,364 - INFO - Processed 133000000 reads so far
2011-05-19 20:16:33,443 - INFO - Processed 133100000 reads so far
2011-05-19 20:16:44,879 - INFO - Processed 133200000 reads so far
2011-05-19 20:16:55,279 - INFO - Processed 133300000 reads so far
2011-05-19 20:17:07,131 - INFO - Processed 133400000 reads so far
2011-05-19 20:17:12,412 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:102990563-123010563
2011-05-19 20:17:18,757 - INFO - Processed 133500000 reads so far
2011-05-19 20:17:30,231 - INFO - Processed 133600000 reads so far
2011-05-19 20:17:41,271 - INFO - Processed 133700000 reads so far
2011-05-19 20:17:54,934 - INFO - Processed 133800000 reads so far
2011-05-19 20:18:08,315 - INFO - Processed 133900000 reads so far
2011-05-19 20:18:22,013 - INFO - Processed 134000000 reads so far
2011-05-19 20:18:35,471 - INFO - Processed 134100000 reads so far
2011-05-19 20:18:46,967 - INFO - Processed 134200000 reads so far
2011-05-19 20:18:58,561 - INFO - Processed 134300000 reads so far
2011-05-19 20:19:08,270 - INFO - Processed 134400000 reads so far
2011-05-19 20:19:19,262 - INFO - Processed 134500000 reads so far
2011-05-19 20:19:30,299 - INFO - Processed 134600000 reads so far
2011-05-19 20:19:38,833 - INFO - Processed 134700000 reads so far
2011-05-19 20:19:48,891 - INFO - Processed 134800000 reads so far
2011-05-19 20:19:59,332 - INFO - Processed 134900000 reads so far
2011-05-19 20:20:06,882 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:122990564-143010564
2011-05-19 20:20:11,028 - INFO - Processed 135000000 reads so far
2011-05-19 20:20:22,510 - INFO - Processed 135100000 reads so far
2011-05-19 20:20:35,103 - INFO - Processed 135200000 reads so far
2011-05-19 20:20:46,173 - INFO - Processed 135300000 reads so far
2011-05-19 20:20:57,714 - INFO - Processed 135400000 reads so far
2011-05-19 20:21:18,963 - INFO - Processed 135500000 reads so far
2011-05-19 20:21:29,710 - INFO - Processed 135600000 reads so far
2011-05-19 20:21:39,237 - INFO - Processed 135700000 reads so far
2011-05-19 20:21:53,749 - INFO - Processed 135800000 reads so far
2011-05-19 20:22:05,318 - INFO - Processed 135900000 reads so far
2011-05-19 20:22:14,547 - INFO - Processed 136000000 reads so far
2011-05-19 20:22:25,585 - INFO - Processed 136100000 reads so far
2011-05-19 20:22:36,729 - INFO - Processed 136200000 reads so far
2011-05-19 20:22:47,877 - INFO - Processed 136300000 reads so far
2011-05-19 20:23:01,411 - INFO - Processed 136400000 reads so far
2011-05-19 20:23:07,169 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:142990570-163010570
2011-05-19 20:23:10,075 - INFO - Processed 136500000 reads so far
2011-05-19 20:23:20,089 - INFO - Processed 136600000 reads so far
2011-05-19 20:23:31,438 - INFO - Processed 136700000 reads so far
2011-05-19 20:23:41,439 - INFO - Processed 136800000 reads so far
2011-05-19 20:23:51,343 - INFO - Processed 136900000 reads so far
2011-05-19 20:24:06,805 - INFO - Processed 137000000 reads so far
2011-05-19 20:24:16,874 - INFO - Processed 137100000 reads so far
2011-05-19 20:24:23,176 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5_random:0-20010066
2011-05-19 20:24:23,939 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:2989979-23009979
2011-05-19 20:24:25,767 - INFO - Processed 137200000 reads so far
2011-05-19 20:24:34,421 - INFO - Processed 137300000 reads so far
2011-05-19 20:24:46,847 - INFO - Processed 137400000 reads so far
2011-05-19 20:25:00,805 - INFO - Processed 137500000 reads so far
2011-05-19 20:25:10,623 - INFO - Processed 137600000 reads so far
2011-05-19 20:25:25,006 - INFO - Processed 137700000 reads so far
2011-05-19 20:25:35,894 - INFO - Processed 137800000 reads so far
2011-05-19 20:25:47,600 - INFO - Processed 137900000 reads so far
2011-05-19 20:25:59,138 - INFO - Processed 138000000 reads so far
2011-05-19 20:26:08,471 - INFO - Processed 138100000 reads so far
2011-05-19 20:26:20,895 - INFO - Processed 138200000 reads so far
2011-05-19 20:26:32,664 - INFO - Processed 138300000 reads so far
2011-05-19 20:26:39,277 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:22990019-43010019
2011-05-19 20:26:45,657 - INFO - Processed 138400000 reads so far
2011-05-19 20:26:58,501 - INFO - Processed 138500000 reads so far
2011-05-19 20:27:10,196 - INFO - Processed 138600000 reads so far
2011-05-19 20:27:22,459 - INFO - Processed 138700000 reads so far
2011-05-19 20:27:32,299 - INFO - Processed 138800000 reads so far
2011-05-19 20:27:44,495 - INFO - Processed 138900000 reads so far
2011-05-19 20:28:02,299 - INFO - Processed 139000000 reads so far
2011-05-19 20:28:12,341 - INFO - Processed 139100000 reads so far
2011-05-19 20:28:21,483 - INFO - Processed 139200000 reads so far
2011-05-19 20:28:34,614 - INFO - Processed 139300000 reads so far
2011-05-19 20:28:46,700 - INFO - Processed 139400000 reads so far
2011-05-19 20:28:57,586 - INFO - Processed 139500000 reads so far
2011-05-19 20:29:08,993 - INFO - Processed 139600000 reads so far
2011-05-19 20:29:17,181 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:42990024-63010024
2011-05-19 20:29:19,946 - INFO - Processed 139700000 reads so far
2011-05-19 20:29:31,304 - INFO - Processed 139800000 reads so far
2011-05-19 20:29:42,281 - INFO - Processed 139900000 reads so far
2011-05-19 20:29:51,153 - INFO - Processed 140000000 reads so far
2011-05-19 20:30:01,746 - INFO - Processed 140100000 reads so far
2011-05-19 20:30:10,560 - INFO - Processed 140200000 reads so far
2011-05-19 20:30:19,983 - INFO - Processed 140300000 reads so far
2011-05-19 20:30:30,457 - INFO - Processed 140400000 reads so far
2011-05-19 20:30:42,179 - INFO - Processed 140500000 reads so far
2011-05-19 20:30:52,796 - INFO - Processed 140600000 reads so far
2011-05-19 20:31:03,900 - INFO - Processed 140700000 reads so far
2011-05-19 20:31:14,353 - INFO - Processed 140800000 reads so far
2011-05-19 20:31:23,906 - INFO - Processed 140900000 reads so far
2011-05-19 20:31:34,613 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:62990119-83010119
2011-05-19 20:31:35,596 - INFO - Processed 141000000 reads so far
2011-05-19 20:31:47,630 - INFO - Processed 141100000 reads so far
2011-05-19 20:32:00,249 - INFO - Processed 141200000 reads so far
2011-05-19 20:32:10,444 - INFO - Processed 141300000 reads so far
2011-05-19 20:32:19,494 - INFO - Processed 141400000 reads so far
2011-05-19 20:32:29,362 - INFO - Processed 141500000 reads so far
2011-05-19 20:32:38,197 - INFO - Processed 141600000 reads so far
2011-05-19 20:32:46,146 - INFO - Processed 141700000 reads so far
2011-05-19 20:32:55,796 - INFO - Processed 141800000 reads so far
2011-05-19 20:33:04,795 - INFO - Processed 141900000 reads so far
2011-05-19 20:33:17,218 - INFO - Processed 142000000 reads so far
2011-05-19 20:33:28,120 - INFO - Processed 142100000 reads so far
2011-05-19 20:33:34,980 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:82990122-103010122
2011-05-19 20:33:37,541 - INFO - Processed 142200000 reads so far
2011-05-19 20:33:47,989 - INFO - Processed 142300000 reads so far
2011-05-19 20:33:58,404 - INFO - Processed 142400000 reads so far
2011-05-19 20:34:07,648 - INFO - Processed 142500000 reads so far
2011-05-19 20:34:16,832 - INFO - Processed 142600000 reads so far
2011-05-19 20:34:28,451 - INFO - Processed 142700000 reads so far
2011-05-19 20:34:38,244 - INFO - Processed 142800000 reads so far
2011-05-19 20:34:47,215 - INFO - Processed 142900000 reads so far
2011-05-19 20:34:59,074 - INFO - Processed 143000000 reads so far
2011-05-19 20:35:08,241 - INFO - Processed 143100000 reads so far
2011-05-19 20:35:18,719 - INFO - Processed 143200000 reads so far
2011-05-19 20:35:27,942 - INFO - Processed 143300000 reads so far
2011-05-19 20:35:38,021 - INFO - Processed 143400000 reads so far
2011-05-19 20:35:47,613 - INFO - Processed 143500000 reads so far
2011-05-19 20:35:56,045 - INFO - Processed 143600000 reads so far
2011-05-19 20:35:58,974 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:102990127-123010127
2011-05-19 20:36:04,498 - INFO - Processed 143700000 reads so far
2011-05-19 20:36:11,872 - INFO - Processed 143800000 reads so far
2011-05-19 20:36:19,252 - INFO - Processed 143900000 reads so far
2011-05-19 20:36:27,649 - INFO - Processed 144000000 reads so far
2011-05-19 20:36:36,401 - INFO - Processed 144100000 reads so far
2011-05-19 20:36:45,096 - INFO - Processed 144200000 reads so far
2011-05-19 20:36:52,984 - INFO - Processed 144300000 reads so far
2011-05-19 20:37:01,482 - INFO - Processed 144400000 reads so far
2011-05-19 20:37:09,047 - INFO - Processed 144500000 reads so far
2011-05-19 20:37:16,673 - INFO - Processed 144600000 reads so far
2011-05-19 20:37:24,860 - INFO - Processed 144700000 reads so far
2011-05-19 20:37:34,537 - INFO - Processed 144800000 reads so far
2011-05-19 20:37:42,290 - INFO - Processed 144900000 reads so far
2011-05-19 20:37:50,283 - INFO - Processed 145000000 reads so far
2011-05-19 20:37:58,504 - INFO - Processed 145100000 reads so far
2011-05-19 20:38:06,775 - INFO - Processed 145200000 reads so far
2011-05-19 20:38:16,791 - INFO - Processed 145300000 reads so far
2011-05-19 20:38:25,134 - INFO - Processed 145400000 reads so far
2011-05-19 20:38:37,301 - INFO - Processed 145500000 reads so far
2011-05-19 20:38:46,486 - INFO - Processed 145600000 reads so far
2011-05-19 20:38:55,597 - INFO - Processed 145700000 reads so far
2011-05-19 20:39:04,933 - INFO - Processed 145800000 reads so far
2011-05-19 20:39:15,483 - INFO - Processed 145900000 reads so far
2011-05-19 20:39:25,653 - INFO - Processed 146000000 reads so far
2011-05-19 20:39:34,634 - INFO - Processed 146100000 reads so far
2011-05-19 20:39:45,606 - INFO - Processed 146200000 reads so far
2011-05-19 20:39:56,517 - INFO - Processed 146300000 reads so far
2011-05-19 20:39:57,318 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:122990133-143010133
2011-05-19 20:40:06,476 - INFO - Processed 146400000 reads so far
2011-05-19 20:40:15,794 - INFO - Processed 146500000 reads so far
2011-05-19 20:40:25,516 - INFO - Processed 146600000 reads so far
2011-05-19 20:40:35,990 - INFO - Processed 146700000 reads so far
2011-05-19 20:40:45,234 - INFO - Processed 146800000 reads so far
2011-05-19 20:40:57,641 - INFO - Processed 146900000 reads so far
2011-05-19 20:41:07,100 - INFO - Processed 147000000 reads so far
2011-05-19 20:41:15,328 - INFO - Processed 147100000 reads so far
2011-05-19 20:41:23,831 - INFO - Processed 147200000 reads so far
2011-05-19 20:41:34,062 - INFO - Processed 147300000 reads so far
2011-05-19 20:41:45,770 - INFO - Processed 147400000 reads so far
2011-05-19 20:41:58,247 - INFO - Processed 147500000 reads so far
2011-05-19 20:42:09,716 - INFO - Processed 147600000 reads so far
2011-05-19 20:42:18,761 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:142990155-163010155
2011-05-19 20:42:22,796 - INFO - Processed 147700000 reads so far
2011-05-19 20:42:33,565 - INFO - Processed 147800000 reads so far
2011-05-19 20:42:45,247 - INFO - Processed 147900000 reads so far
2011-05-19 20:42:56,302 - INFO - Processed 148000000 reads so far
2011-05-19 20:43:07,187 - INFO - Processed 148100000 reads so far
2011-05-19 20:43:12,746 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:2990011-23010011
2011-05-19 20:43:22,176 - INFO - Processed 148200000 reads so far
2011-05-19 20:43:33,034 - INFO - Processed 148300000 reads so far
2011-05-19 20:43:45,208 - INFO - Processed 148400000 reads so far
2011-05-19 20:44:00,468 - INFO - Processed 148500000 reads so far
2011-05-19 20:44:12,104 - INFO - Processed 148600000 reads so far
2011-05-19 20:44:23,406 - INFO - Processed 148700000 reads so far
2011-05-19 20:44:34,251 - INFO - Processed 148800000 reads so far
2011-05-19 20:44:45,392 - INFO - Processed 148900000 reads so far
2011-05-19 20:44:56,267 - INFO - Processed 149000000 reads so far
2011-05-19 20:45:06,862 - INFO - Processed 149100000 reads so far
2011-05-19 20:45:18,082 - INFO - Processed 149200000 reads so far
2011-05-19 20:45:20,125 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:22990585-43010585
2011-05-19 20:45:29,362 - INFO - Processed 149300000 reads so far
2011-05-19 20:45:41,877 - INFO - Processed 149400000 reads so far
2011-05-19 20:45:52,964 - INFO - Processed 149500000 reads so far
2011-05-19 20:46:04,170 - INFO - Processed 149600000 reads so far
2011-05-19 20:46:15,855 - INFO - Processed 149700000 reads so far
2011-05-19 20:46:28,004 - INFO - Processed 149800000 reads so far
2011-05-19 20:46:39,357 - INFO - Processed 149900000 reads so far
2011-05-19 20:46:49,518 - INFO - Processed 150000000 reads so far
2011-05-19 20:47:01,521 - INFO - Processed 150100000 reads so far
2011-05-19 20:47:11,287 - INFO - Processed 150200000 reads so far
2011-05-19 20:47:19,997 - INFO - Processed 150300000 reads so far
2011-05-19 20:47:22,428 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:46347485-66367485
2011-05-19 20:47:32,007 - INFO - Processed 150400000 reads so far
2011-05-19 20:47:40,752 - INFO - Processed 150500000 reads so far
2011-05-19 20:47:51,729 - INFO - Processed 150600000 reads so far
2011-05-19 20:48:03,091 - INFO - Processed 150700000 reads so far
2011-05-19 20:48:14,746 - INFO - Processed 150800000 reads so far
2011-05-19 20:48:26,678 - INFO - Processed 150900000 reads so far
2011-05-19 20:48:49,992 - INFO - Processed 151000000 reads so far
2011-05-19 20:49:04,267 - INFO - Processed 151100000 reads so far
2011-05-19 20:49:15,035 - INFO - Processed 151200000 reads so far
2011-05-19 20:49:26,856 - INFO - Processed 151300000 reads so far
2011-05-19 20:49:38,036 - INFO - Processed 151400000 reads so far
2011-05-19 20:49:48,700 - INFO - Processed 151500000 reads so far
2011-05-19 20:50:00,173 - INFO - Processed 151600000 reads so far
2011-05-19 20:50:04,852 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:66347601-86367601
2011-05-19 20:50:09,934 - INFO - Processed 151700000 reads so far
2011-05-19 20:50:18,634 - INFO - Processed 151800000 reads so far
2011-05-19 20:50:27,138 - INFO - Processed 151900000 reads so far
2011-05-19 20:50:38,575 - INFO - Processed 152000000 reads so far
2011-05-19 20:50:50,257 - INFO - Processed 152100000 reads so far
2011-05-19 20:51:01,063 - INFO - Processed 152200000 reads so far
2011-05-19 20:51:09,843 - INFO - Processed 152300000 reads so far
2011-05-19 20:51:21,667 - INFO - Processed 152400000 reads so far
2011-05-19 20:51:37,547 - INFO - Processed 152500000 reads so far
2011-05-19 20:51:49,852 - INFO - Processed 152600000 reads so far
2011-05-19 20:52:00,918 - INFO - Processed 152700000 reads so far
2011-05-19 20:52:11,696 - INFO - Processed 152800000 reads so far
2011-05-19 20:52:21,636 - INFO - Processed 152900000 reads so far
2011-05-19 20:52:30,017 - INFO - Processed 153000000 reads so far
2011-05-19 20:52:32,467 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:86347615-106367615
2011-05-19 20:52:39,526 - INFO - Processed 153100000 reads so far
2011-05-19 20:52:50,515 - INFO - Processed 153200000 reads so far
2011-05-19 20:52:59,337 - INFO - Processed 153300000 reads so far
2011-05-19 20:53:07,796 - INFO - Processed 153400000 reads so far
2011-05-19 20:53:17,069 - INFO - Processed 153500000 reads so far
2011-05-19 20:53:26,659 - INFO - Processed 153600000 reads so far
2011-05-19 20:53:36,446 - INFO - Processed 153700000 reads so far
2011-05-19 20:53:46,023 - INFO - Processed 153800000 reads so far
2011-05-19 20:53:55,017 - INFO - Processed 153900000 reads so far
2011-05-19 20:54:04,697 - INFO - Processed 154000000 reads so far
2011-05-19 20:54:12,551 - INFO - Processed 154100000 reads so far
2011-05-19 20:54:20,488 - INFO - Processed 154200000 reads so far
2011-05-19 20:54:29,679 - INFO - Processed 154300000 reads so far
2011-05-19 20:54:31,006 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:106347618-126367618
2011-05-19 20:54:38,916 - INFO - Processed 154400000 reads so far
2011-05-19 20:54:49,106 - INFO - Processed 154500000 reads so far
2011-05-19 20:54:58,241 - INFO - Processed 154600000 reads so far
2011-05-19 20:55:07,921 - INFO - Processed 154700000 reads so far
2011-05-19 20:55:16,046 - INFO - Processed 154800000 reads so far
2011-05-19 20:55:24,706 - INFO - Processed 154900000 reads so far
2011-05-19 20:55:32,881 - INFO - Processed 155000000 reads so far
2011-05-19 20:55:41,693 - INFO - Processed 155100000 reads so far
2011-05-19 20:55:50,557 - INFO - Processed 155200000 reads so far
2011-05-19 20:55:59,604 - INFO - Processed 155300000 reads so far
2011-05-19 20:56:07,702 - INFO - Processed 155400000 reads so far
2011-05-19 20:56:17,258 - INFO - Processed 155500000 reads so far
2011-05-19 20:56:26,043 - INFO - Processed 155600000 reads so far
2011-05-19 20:56:35,244 - INFO - Processed 155700000 reads so far
2011-05-19 20:56:36,075 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:126347623-146367623
2011-05-19 20:56:46,217 - INFO - Processed 155800000 reads so far
2011-05-19 20:56:57,961 - INFO - Processed 155900000 reads so far
2011-05-19 20:57:09,231 - INFO - Processed 156000000 reads so far
2011-05-19 20:57:19,343 - INFO - Processed 156100000 reads so far
2011-05-19 20:57:30,367 - INFO - Processed 156200000 reads so far
2011-05-19 20:57:41,337 - INFO - Processed 156300000 reads so far
2011-05-19 20:57:53,316 - INFO - Processed 156400000 reads so far
2011-05-19 20:58:03,859 - INFO - Processed 156500000 reads so far
2011-05-19 20:58:14,721 - INFO - Processed 156600000 reads so far
2011-05-19 20:58:25,675 - INFO - Processed 156700000 reads so far
2011-05-19 20:58:36,363 - INFO - Processed 156800000 reads so far
2011-05-19 20:58:47,616 - INFO - Processed 156900000 reads so far
2011-05-19 20:58:58,881 - INFO - Processed 157000000 reads so far
2011-05-19 20:59:09,582 - INFO - Processed 157100000 reads so far
2011-05-19 20:59:22,381 - INFO - Processed 157200000 reads so far
2011-05-19 20:59:24,796 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:146347627-166367627
2011-05-19 20:59:35,086 - INFO - Processed 157300000 reads so far
2011-05-19 20:59:45,507 - INFO - Processed 157400000 reads so far
2011-05-19 20:59:54,829 - INFO - Processed 157500000 reads so far
2011-05-19 21:00:06,241 - INFO - Processed 157600000 reads so far
2011-05-19 21:00:20,641 - INFO - Processed 157700000 reads so far
2011-05-19 21:00:21,422 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7_random:0-20010002
2011-05-19 21:00:22,993 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:2990004-23010004
2011-05-19 21:00:32,661 - INFO - Processed 157800000 reads so far
2011-05-19 21:00:44,692 - INFO - Processed 157900000 reads so far
2011-05-19 21:00:56,310 - INFO - Processed 158000000 reads so far
2011-05-19 21:01:06,729 - INFO - Processed 158100000 reads so far
2011-05-19 21:01:18,324 - INFO - Processed 158200000 reads so far
2011-05-19 21:01:29,369 - INFO - Processed 158300000 reads so far
2011-05-19 21:01:41,426 - INFO - Processed 158400000 reads so far
2011-05-19 21:01:53,337 - INFO - Processed 158500000 reads so far
2011-05-19 21:02:04,082 - INFO - Processed 158600000 reads so far
2011-05-19 21:02:12,925 - INFO - Processed 158700000 reads so far
2011-05-19 21:02:23,365 - INFO - Processed 158800000 reads so far
2011-05-19 21:02:34,632 - INFO - Processed 158900000 reads so far
2011-05-19 21:02:45,527 - INFO - Processed 159000000 reads so far
2011-05-19 21:02:55,118 - INFO - Processed 159100000 reads so far
2011-05-19 21:03:03,606 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:22990005-43010005
2011-05-19 21:03:04,455 - INFO - Processed 159200000 reads so far
2011-05-19 21:03:16,700 - INFO - Processed 159300000 reads so far
2011-05-19 21:03:27,952 - INFO - Processed 159400000 reads so far
2011-05-19 21:03:39,166 - INFO - Processed 159500000 reads so far
2011-05-19 21:03:50,927 - INFO - Processed 159600000 reads so far
2011-05-19 21:04:02,147 - INFO - Processed 159700000 reads so far
2011-05-19 21:04:13,857 - INFO - Processed 159800000 reads so far
2011-05-19 21:04:23,877 - INFO - Processed 159900000 reads so far
2011-05-19 21:04:38,362 - INFO - Processed 160000000 reads so far
2011-05-19 21:04:50,145 - INFO - Processed 160100000 reads so far
2011-05-19 21:05:01,491 - INFO - Processed 160200000 reads so far
2011-05-19 21:05:12,966 - INFO - Processed 160300000 reads so far
2011-05-19 21:05:22,509 - INFO - Processed 160400000 reads so far
2011-05-19 21:05:30,710 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:42990010-63010010
2011-05-19 21:05:31,755 - INFO - Processed 160500000 reads so far
2011-05-19 21:05:41,189 - INFO - Processed 160600000 reads so far
2011-05-19 21:05:49,387 - INFO - Processed 160700000 reads so far
2011-05-19 21:05:57,218 - INFO - Processed 160800000 reads so far
2011-05-19 21:06:05,592 - INFO - Processed 160900000 reads so far
2011-05-19 21:06:15,800 - INFO - Processed 161000000 reads so far
2011-05-19 21:06:24,835 - INFO - Processed 161100000 reads so far
2011-05-19 21:06:32,586 - INFO - Processed 161200000 reads so far
2011-05-19 21:06:41,759 - INFO - Processed 161300000 reads so far
2011-05-19 21:06:51,289 - INFO - Processed 161400000 reads so far
2011-05-19 21:07:00,233 - INFO - Processed 161500000 reads so far
2011-05-19 21:07:05,383 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:62990015-83010015
2011-05-19 21:07:08,950 - INFO - Processed 161600000 reads so far
2011-05-19 21:07:17,262 - INFO - Processed 161700000 reads so far
2011-05-19 21:07:26,680 - INFO - Processed 161800000 reads so far
2011-05-19 21:07:36,197 - INFO - Processed 161900000 reads so far
2011-05-19 21:07:45,591 - INFO - Processed 162000000 reads so far
2011-05-19 21:07:54,047 - INFO - Processed 162100000 reads so far
2011-05-19 21:08:02,830 - INFO - Processed 162200000 reads so far
2011-05-19 21:08:11,877 - INFO - Processed 162300000 reads so far
2011-05-19 21:08:20,324 - INFO - Processed 162400000 reads so far
2011-05-19 21:08:30,170 - INFO - Processed 162500000 reads so far
2011-05-19 21:08:38,446 - INFO - Processed 162600000 reads so far
2011-05-19 21:08:46,243 - INFO - Processed 162700000 reads so far
2011-05-19 21:08:54,850 - INFO - Processed 162800000 reads so far
2011-05-19 21:09:00,625 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:82990026-103010026
2011-05-19 21:09:02,880 - INFO - Processed 162900000 reads so far
2011-05-19 21:09:11,543 - INFO - Processed 163000000 reads so far
2011-05-19 21:09:20,155 - INFO - Processed 163100000 reads so far
2011-05-19 21:09:29,521 - INFO - Processed 163200000 reads so far
2011-05-19 21:09:37,575 - INFO - Processed 163300000 reads so far
2011-05-19 21:10:05,633 - INFO - Processed 163400000 reads so far
2011-05-19 21:10:15,614 - INFO - Processed 163500000 reads so far
2011-05-19 21:10:42,663 - INFO - Processed 163600000 reads so far
2011-05-19 21:11:00,317 - INFO - Processed 163700000 reads so far
2011-05-19 21:11:17,283 - INFO - Processed 163800000 reads so far
2011-05-19 21:11:27,794 - INFO - Processed 163900000 reads so far
2011-05-19 21:11:41,241 - INFO - Processed 164000000 reads so far
2011-05-19 21:11:52,603 - INFO - Processed 164100000 reads so far
2011-05-19 21:12:05,002 - INFO - Processed 164200000 reads so far
2011-05-19 21:12:07,794 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:102990030-123010030
2011-05-19 21:12:12,993 - INFO - Processed 164300000 reads so far
2011-05-19 21:12:20,362 - INFO - Processed 164400000 reads so far
2011-05-19 21:12:27,373 - INFO - Processed 164500000 reads so far
2011-05-19 21:12:34,584 - INFO - Processed 164600000 reads so far
2011-05-19 21:12:43,812 - INFO - Processed 164700000 reads so far
2011-05-19 21:12:52,847 - INFO - Processed 164800000 reads so far
2011-05-19 21:13:04,384 - INFO - Processed 164900000 reads so far
2011-05-19 21:13:12,669 - INFO - Processed 165000000 reads so far
2011-05-19 21:13:21,458 - INFO - Processed 165100000 reads so far
2011-05-19 21:13:30,379 - INFO - Processed 165200000 reads so far
2011-05-19 21:13:38,488 - INFO - Processed 165300000 reads so far
2011-05-19 21:13:46,852 - INFO - Processed 165400000 reads so far
2011-05-19 21:13:55,183 - INFO - Processed 165500000 reads so far
2011-05-19 21:14:04,529 - INFO - Processed 165600000 reads so far
2011-05-19 21:14:07,797 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:122990051-143010051
2011-05-19 21:14:18,124 - INFO - Processed 165700000 reads so far
2011-05-19 21:14:29,853 - INFO - Processed 165800000 reads so far
2011-05-19 21:14:41,109 - INFO - Processed 165900000 reads so far
2011-05-19 21:14:51,984 - INFO - Processed 166000000 reads so far
2011-05-19 21:15:04,687 - INFO - Processed 166100000 reads so far
2011-05-19 21:15:15,206 - INFO - Processed 166200000 reads so far
2011-05-19 21:15:27,059 - INFO - Processed 166300000 reads so far
2011-05-19 21:15:31,988 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8_random:0-20010039
2011-05-19 21:15:38,348 - INFO - Processed 166400000 reads so far
2011-05-19 21:15:49,375 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:2989957-23009957
2011-05-19 21:15:51,180 - INFO - Processed 166500000 reads so far
2011-05-19 21:15:59,442 - INFO - Processed 166600000 reads so far
2011-05-19 21:16:08,570 - INFO - Processed 166700000 reads so far
2011-05-19 21:16:16,997 - INFO - Processed 166800000 reads so far
2011-05-19 21:16:27,954 - INFO - Processed 166900000 reads so far
2011-05-19 21:16:39,225 - INFO - Processed 167000000 reads so far
2011-05-19 21:16:48,582 - INFO - Processed 167100000 reads so far
2011-05-19 21:16:56,575 - INFO - Processed 167200000 reads so far
2011-05-19 21:17:07,262 - INFO - Processed 167300000 reads so far
2011-05-19 21:17:15,311 - INFO - Processed 167400000 reads so far
2011-05-19 21:17:23,282 - INFO - Processed 167500000 reads so far
2011-05-19 21:17:33,267 - INFO - Processed 167600000 reads so far
2011-05-19 21:17:42,330 - INFO - Processed 167700000 reads so far
2011-05-19 21:17:50,759 - INFO - Processed 167800000 reads so far
2011-05-19 21:17:57,927 - INFO - Processed 167900000 reads so far
2011-05-19 21:18:04,865 - INFO - Processed 168000000 reads so far
2011-05-19 21:18:12,279 - INFO - Processed 168100000 reads so far
2011-05-19 21:18:20,743 - INFO - Processed 168200000 reads so far
2011-05-19 21:18:27,555 - INFO - Processed 168300000 reads so far
2011-05-19 21:18:34,633 - INFO - Processed 168400000 reads so far
2011-05-19 21:18:42,015 - INFO - Processed 168500000 reads so far
2011-05-19 21:18:49,815 - INFO - Processed 168600000 reads so far
2011-05-19 21:18:58,428 - INFO - Processed 168700000 reads so far
2011-05-19 21:19:07,788 - INFO - Processed 168800000 reads so far
2011-05-19 21:19:16,980 - INFO - Processed 168900000 reads so far
2011-05-19 21:19:24,266 - INFO - Processed 169000000 reads so far
2011-05-19 21:19:31,747 - INFO - Processed 169100000 reads so far
2011-05-19 21:19:41,452 - INFO - Processed 169200000 reads so far
2011-05-19 21:19:52,854 - INFO - Processed 169300000 reads so far
2011-05-19 21:20:01,195 - INFO - Processed 169400000 reads so far
2011-05-19 21:20:09,373 - INFO - Processed 169500000 reads so far
2011-05-19 21:20:16,574 - INFO - Processed 169600000 reads so far
2011-05-19 21:20:23,670 - INFO - Processed 169700000 reads so far
2011-05-19 21:20:31,129 - INFO - Processed 169800000 reads so far
2011-05-19 21:20:43,653 - INFO - Processed 169900000 reads so far
2011-05-19 21:20:51,764 - INFO - Processed 170000000 reads so far
2011-05-19 21:20:59,493 - INFO - Processed 170100000 reads so far
2011-05-19 21:21:06,538 - INFO - Processed 170200000 reads so far
2011-05-19 21:21:13,643 - INFO - Processed 170300000 reads so far
2011-05-19 21:21:22,963 - INFO - Processed 170400000 reads so far
2011-05-19 21:21:31,831 - INFO - Processed 170500000 reads so far
2011-05-19 21:21:38,975 - INFO - Processed 170600000 reads so far
2011-05-19 21:21:46,244 - INFO - Processed 170700000 reads so far
2011-05-19 21:21:53,277 - INFO - Processed 170800000 reads so far
2011-05-19 21:22:02,802 - INFO - Processed 170900000 reads so far
2011-05-19 21:22:10,720 - INFO - Processed 171000000 reads so far
2011-05-19 21:22:17,837 - INFO - Processed 171100000 reads so far
2011-05-19 21:22:24,566 - INFO - Processed 171200000 reads so far
2011-05-19 21:22:34,106 - INFO - Processed 171300000 reads so far
2011-05-19 21:22:41,637 - INFO - Processed 171400000 reads so far
2011-05-19 21:22:50,451 - INFO - Processed 171500000 reads so far
2011-05-19 21:22:58,134 - INFO - Processed 171600000 reads so far
2011-05-19 21:23:04,722 - INFO - Processed 171700000 reads so far
2011-05-19 21:23:12,443 - INFO - Processed 171800000 reads so far
2011-05-19 21:23:21,737 - INFO - Processed 171900000 reads so far
2011-05-19 21:23:29,204 - INFO - Processed 172000000 reads so far
2011-05-19 21:23:36,412 - INFO - Processed 172100000 reads so far
2011-05-19 21:23:44,876 - INFO - Processed 172200000 reads so far
2011-05-19 21:23:52,003 - INFO - Processed 172300000 reads so far
2011-05-19 21:23:58,911 - INFO - Processed 172400000 reads so far
2011-05-19 21:24:06,370 - INFO - Processed 172500000 reads so far
2011-05-19 21:24:14,024 - INFO - Processed 172600000 reads so far
2011-05-19 21:24:20,965 - INFO - Processed 172700000 reads so far
2011-05-19 21:24:29,642 - INFO - Processed 172800000 reads so far
2011-05-19 21:24:37,847 - INFO - Processed 172900000 reads so far
2011-05-19 21:24:45,206 - INFO - Processed 173000000 reads so far
2011-05-19 21:24:53,128 - INFO - Processed 173100000 reads so far
2011-05-19 21:24:59,919 - INFO - Processed 173200000 reads so far
2011-05-19 21:25:07,117 - INFO - Processed 173300000 reads so far
2011-05-19 21:25:16,317 - INFO - Processed 173400000 reads so far
2011-05-19 21:25:23,457 - INFO - Processed 173500000 reads so far
2011-05-19 21:25:30,233 - INFO - Processed 173600000 reads so far
2011-05-19 21:25:38,220 - INFO - Processed 173700000 reads so far
2011-05-19 21:25:46,597 - INFO - Processed 173800000 reads so far
2011-05-19 21:25:54,270 - INFO - Processed 173900000 reads so far
2011-05-19 21:26:03,938 - INFO - Processed 174000000 reads so far
2011-05-19 21:26:12,305 - INFO - Processed 174100000 reads so far
2011-05-19 21:26:20,581 - INFO - Processed 174200000 reads so far
2011-05-19 21:26:29,149 - INFO - Processed 174300000 reads so far
2011-05-19 21:26:38,498 - INFO - Processed 174400000 reads so far
2011-05-19 21:26:45,839 - INFO - Processed 174500000 reads so far
2011-05-19 21:26:52,550 - INFO - Processed 174600000 reads so far
2011-05-19 21:26:59,730 - INFO - Processed 174700000 reads so far
2011-05-19 21:27:06,760 - INFO - Processed 174800000 reads so far
2011-05-19 21:27:13,910 - INFO - Processed 174900000 reads so far
2011-05-19 21:27:22,344 - INFO - Processed 175000000 reads so far
2011-05-19 21:27:29,995 - INFO - Processed 175100000 reads so far
2011-05-19 21:27:36,835 - INFO - Processed 175200000 reads so far
2011-05-19 21:27:44,670 - INFO - Processed 175300000 reads so far
2011-05-19 21:27:53,159 - INFO - Processed 175400000 reads so far
2011-05-19 21:28:01,204 - INFO - Processed 175500000 reads so far
2011-05-19 21:28:09,787 - INFO - Processed 175600000 reads so far
2011-05-19 21:28:19,694 - INFO - Processed 175700000 reads so far
2011-05-19 21:28:28,362 - INFO - Processed 175800000 reads so far
2011-05-19 21:28:37,832 - INFO - Processed 175900000 reads so far
2011-05-19 21:28:46,791 - INFO - Processed 176000000 reads so far
2011-05-19 21:28:55,234 - INFO - Processed 176100000 reads so far
2011-05-19 21:29:06,160 - INFO - Processed 176200000 reads so far
2011-05-19 21:29:14,324 - INFO - Processed 176300000 reads so far
2011-05-19 21:29:24,751 - INFO - Processed 176400000 reads so far
2011-05-19 21:29:35,793 - INFO - Processed 176500000 reads so far
2011-05-19 21:29:44,712 - INFO - Processed 176600000 reads so far
2011-05-19 21:29:54,464 - INFO - Processed 176700000 reads so far
2011-05-19 21:29:54,502 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:22989971-43009971
2011-05-19 21:30:04,878 - INFO - Processed 176800000 reads so far
2011-05-19 21:30:13,339 - INFO - Processed 176900000 reads so far
2011-05-19 21:30:24,481 - INFO - Processed 177000000 reads so far
2011-05-19 21:30:35,098 - INFO - Processed 177100000 reads so far
2011-05-19 21:30:45,369 - INFO - Processed 177200000 reads so far
2011-05-19 21:30:54,637 - INFO - Processed 177300000 reads so far
2011-05-19 21:31:03,236 - INFO - Processed 177400000 reads so far
2011-05-19 21:31:13,734 - INFO - Processed 177500000 reads so far
2011-05-19 21:31:21,911 - INFO - Processed 177600000 reads so far
2011-05-19 21:31:29,737 - INFO - Processed 177700000 reads so far
2011-05-19 21:31:38,268 - INFO - Processed 177800000 reads so far
2011-05-19 21:31:48,538 - INFO - Processed 177900000 reads so far
2011-05-19 21:31:57,085 - INFO - Processed 178000000 reads so far
2011-05-19 21:32:07,569 - INFO - Processed 178100000 reads so far
2011-05-19 21:32:17,570 - INFO - Processed 178200000 reads so far
2011-05-19 21:32:25,896 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:42989988-63009988
2011-05-19 21:32:31,991 - INFO - Processed 178300000 reads so far
2011-05-19 21:32:44,221 - INFO - Processed 178400000 reads so far
2011-05-19 21:32:55,265 - INFO - Processed 178500000 reads so far
2011-05-19 21:33:05,794 - INFO - Processed 178600000 reads so far
2011-05-19 21:33:19,430 - INFO - Processed 178700000 reads so far
2011-05-19 21:33:32,313 - INFO - Processed 178800000 reads so far
2011-05-19 21:33:42,695 - INFO - Processed 178900000 reads so far
2011-05-19 21:33:51,907 - INFO - Processed 179000000 reads so far
2011-05-19 21:34:00,416 - INFO - Processed 179100000 reads so far
2011-05-19 21:34:11,837 - INFO - Processed 179200000 reads so far
2011-05-19 21:34:20,907 - INFO - Processed 179300000 reads so far
2011-05-19 21:34:36,865 - INFO - Processed 179400000 reads so far
2011-05-19 21:34:52,184 - INFO - Processed 179500000 reads so far
2011-05-19 21:35:00,427 - INFO - Processed 179600000 reads so far
2011-05-19 21:35:13,091 - INFO - Processed 179700000 reads so far
2011-05-19 21:35:14,529 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:62989994-83009994
2011-05-19 21:35:24,877 - INFO - Processed 179800000 reads so far
2011-05-19 21:35:36,226 - INFO - Processed 179900000 reads so far
2011-05-19 21:35:47,165 - INFO - Processed 180000000 reads so far
2011-05-19 21:36:01,225 - INFO - Processed 180100000 reads so far
2011-05-19 21:36:12,736 - INFO - Processed 180200000 reads so far
2011-05-19 21:36:23,744 - INFO - Processed 180300000 reads so far
2011-05-19 21:36:35,509 - INFO - Processed 180400000 reads so far
2011-05-19 21:36:46,860 - INFO - Processed 180500000 reads so far
2011-05-19 21:36:59,553 - INFO - Processed 180600000 reads so far
2011-05-19 21:37:09,919 - INFO - Processed 180700000 reads so far
2011-05-19 21:37:19,716 - INFO - Processed 180800000 reads so far
2011-05-19 21:37:31,148 - INFO - Processed 180900000 reads so far
2011-05-19 21:37:43,170 - INFO - Processed 181000000 reads so far
2011-05-19 21:37:51,374 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:82990014-103010014
2011-05-19 21:37:55,351 - INFO - Processed 181100000 reads so far
2011-05-19 21:38:06,668 - INFO - Processed 181200000 reads so far
2011-05-19 21:38:17,439 - INFO - Processed 181300000 reads so far
2011-05-19 21:38:28,902 - INFO - Processed 181400000 reads so far
2011-05-19 21:38:40,104 - INFO - Processed 181500000 reads so far
2011-05-19 21:38:53,420 - INFO - Processed 181600000 reads so far
2011-05-19 21:39:05,004 - INFO - Processed 181700000 reads so far
2011-05-19 21:39:17,573 - INFO - Processed 181800000 reads so far
2011-05-19 21:39:29,240 - INFO - Processed 181900000 reads so far
2011-05-19 21:39:41,250 - INFO - Processed 182000000 reads so far
2011-05-19 21:39:52,344 - INFO - Processed 182100000 reads so far
2011-05-19 21:40:04,353 - INFO - Processed 182200000 reads so far
2011-05-19 21:40:16,159 - INFO - Processed 182300000 reads so far
2011-05-19 21:40:25,568 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:102990022-123010022
2011-05-19 21:40:29,219 - INFO - Processed 182400000 reads so far
2011-05-19 21:40:41,638 - INFO - Processed 182500000 reads so far
2011-05-19 21:40:51,385 - INFO - Processed 182600000 reads so far
2011-05-19 21:41:03,902 - INFO - Processed 182700000 reads so far
2011-05-19 21:41:15,766 - INFO - Processed 182800000 reads so far
2011-05-19 21:41:29,783 - INFO - Processed 182900000 reads so far
2011-05-19 21:41:41,086 - INFO - Processed 183000000 reads so far
2011-05-19 21:41:52,194 - INFO - Processed 183100000 reads so far
2011-05-19 21:42:03,235 - INFO - Processed 183200000 reads so far
2011-05-19 21:42:14,438 - INFO - Processed 183300000 reads so far
2011-05-19 21:42:26,818 - INFO - Processed 183400000 reads so far
2011-05-19 21:42:37,847 - INFO - Processed 183500000 reads so far
2011-05-19 21:42:49,210 - INFO - Processed 183600000 reads so far
2011-05-19 21:43:00,981 - INFO - Processed 183700000 reads so far
2011-05-19 21:43:11,909 - INFO - Processed 183800000 reads so far
2011-05-19 21:43:21,402 - INFO - Processed 183900000 reads so far
2011-05-19 21:43:21,741 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:122990027-143010027
2011-05-19 21:43:28,442 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9_random:0-20010005
2011-05-19 21:43:30,668 - INFO - Processed 184000000 reads so far
2011-05-19 21:43:31,617 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrM:0-20010000
2011-05-19 21:43:37,273 - INFO - Processed 184100000 reads so far
2011-05-19 21:43:39,654 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrUn_random:0-20010001
2011-05-19 21:43:46,305 - INFO - Processed 184200000 reads so far
2011-05-19 21:43:56,766 - INFO - Processed 184300000 reads so far
2011-05-19 21:44:07,136 - INFO - Processed 184400000 reads so far
2011-05-19 21:44:17,705 - INFO - Processed 184500000 reads so far
2011-05-19 21:44:27,457 - INFO - Processed 184600000 reads so far
2011-05-19 21:44:35,046 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:2989999-23009999
2011-05-19 21:44:36,892 - INFO - Processed 184700000 reads so far
2011-05-19 21:44:46,896 - INFO - Processed 184800000 reads so far
2011-05-19 21:44:56,614 - INFO - Processed 184900000 reads so far
2011-05-19 21:45:06,410 - INFO - Processed 185000000 reads so far
2011-05-19 21:45:19,478 - INFO - Processed 185100000 reads so far
2011-05-19 21:45:31,025 - INFO - Processed 185200000 reads so far
2011-05-19 21:45:41,466 - INFO - Processed 185300000 reads so far
2011-05-19 21:45:43,563 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:22990035-43010035
2011-05-19 21:45:53,188 - INFO - Processed 185400000 reads so far
2011-05-19 21:46:03,863 - INFO - Processed 185500000 reads so far
2011-05-19 21:46:15,412 - INFO - Processed 185600000 reads so far
2011-05-19 21:46:26,595 - INFO - Processed 185700000 reads so far
2011-05-19 21:46:38,495 - INFO - Processed 185800000 reads so far
2011-05-19 21:46:49,849 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:42990044-63010044
2011-05-19 21:46:51,593 - INFO - Processed 185900000 reads so far
2011-05-19 21:47:02,322 - INFO - Processed 186000000 reads so far
2011-05-19 21:47:14,700 - INFO - Processed 186100000 reads so far
2011-05-19 21:47:25,689 - INFO - Processed 186200000 reads so far
2011-05-19 21:47:38,090 - INFO - Processed 186300000 reads so far
2011-05-19 21:47:48,376 - INFO - Processed 186400000 reads so far
2011-05-19 21:47:58,562 - INFO - Processed 186500000 reads so far
2011-05-19 21:47:59,519 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:62990045-83010045
2011-05-19 21:48:10,660 - INFO - Processed 186600000 reads so far
2011-05-19 21:48:20,852 - INFO - Processed 186700000 reads so far
2011-05-19 21:48:32,271 - INFO - Processed 186800000 reads so far
2011-05-19 21:48:44,554 - INFO - Processed 186900000 reads so far
2011-05-19 21:48:56,002 - INFO - Processed 187000000 reads so far
2011-05-19 21:49:10,398 - INFO - Processed 187100000 reads so far
2011-05-19 21:49:11,967 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:82990064-103010064
2011-05-19 21:49:23,552 - INFO - Processed 187200000 reads so far
2011-05-19 21:49:35,700 - INFO - Processed 187300000 reads so far
2011-05-19 21:49:47,997 - INFO - Processed 187400000 reads so far
2011-05-19 21:50:01,878 - INFO - Processed 187500000 reads so far
2011-05-19 21:50:13,777 - INFO - Processed 187600000 reads so far
2011-05-19 21:50:26,703 - INFO - Processed 187700000 reads so far
2011-05-19 21:50:27,349 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:102990075-123010075
2011-05-19 21:50:38,806 - INFO - Processed 187800000 reads so far
2011-05-19 21:50:51,792 - INFO - Processed 187900000 reads so far
2011-05-19 21:51:03,662 - INFO - Processed 188000000 reads so far
2011-05-19 21:51:16,421 - INFO - Processed 188100000 reads so far
2011-05-19 21:51:28,267 - INFO - Processed 188200000 reads so far
2011-05-19 21:51:39,021 - INFO - Processed 188300000 reads so far
2011-05-19 21:51:45,672 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:122990117-143010117
2011-05-19 21:51:51,101 - INFO - Processed 188400000 reads so far
2011-05-19 21:52:04,060 - INFO - Processed 188500000 reads so far
2011-05-19 21:52:16,148 - INFO - Processed 188600000 reads so far
2011-05-19 21:52:28,491 - INFO - Processed 188700000 reads so far
2011-05-19 21:52:42,855 - INFO - Processed 188800000 reads so far
2011-05-19 21:52:53,975 - INFO - Processed 188900000 reads so far
2011-05-19 21:53:01,948 - INFO - Processed 189000000 reads so far
2011-05-19 21:53:04,701 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:142990135-163010135
2011-05-19 21:53:13,708 - INFO - Processed 189100000 reads so far
2011-05-19 21:53:25,754 - INFO - Processed 189200000 reads so far
2011-05-19 21:53:37,664 - INFO - Processed 189300000 reads so far
2011-05-19 21:53:50,562 - INFO - Processed 189400000 reads so far
2011-05-19 21:54:01,584 - INFO - Processed 189500000 reads so far
2011-05-19 21:54:11,879 - INFO - Processed 189600000 reads so far
2011-05-19 21:54:14,297 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:162990151-183010151
2011-05-19 21:54:23,178 - INFO - Processed 189700000 reads so far
2011-05-19 21:54:32,954 - INFO - Processed 189800000 reads so far
2011-05-19 21:54:40,745 - INFO - Processed 189900000 reads so far
2011-05-19 21:54:43,502 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX_random:0-20010000
2011-05-19 21:54:49,878 - INFO - Processed 190000000 reads so far
2011-05-19 21:54:50,089 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrY:0-20010000
2011-05-19 21:55:01,435 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrY_random:0-20011063
2011-05-19 21:55:02,038 - INFO - Processed 190100000 reads so far
2011-05-19 21:55:13,134 - INFO - Processed 190200000 reads so far
2011-05-19 21:55:22,973 - INFO - Processed 190300000 reads so far
2011-05-19 21:55:33,468 - INFO - Processed 190400000 reads so far
2011-05-19 21:55:44,483 - INFO - Processed 190500000 reads so far
2011-05-19 21:55:55,424 - INFO - Processed 190600000 reads so far
2011-05-19 21:56:04,908 - INFO - Processed 190700000 reads so far
2011-05-19 21:56:15,494 - INFO - Processed 190800000 reads so far
2011-05-19 21:56:24,345 - INFO - Processed 190900000 reads so far
2011-05-19 21:56:36,472 - INFO - Processed 191000000 reads so far
2011-05-19 21:56:39,945 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrY_random:19991093-40011093
2011-05-19 21:56:48,875 - INFO - Processed 191100000 reads so far
2011-05-19 21:56:58,829 - INFO - Processed 191200000 reads so far
2011-05-19 21:57:08,144 - INFO - Processed 191300000 reads so far
2011-05-19 21:57:20,674 - INFO - Processed 191400000 reads so far
2011-05-19 21:57:33,986 - INFO - Processed 191500000 reads so far
2011-05-19 21:57:38,614 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrY_random:39991446-60011446
2011-05-19 21:57:45,268 - INFO - Processed 191600000 reads so far
2011-05-19 21:57:59,696 - INFO - Processed 191700000 reads so far
2011-05-19 21:58:08,420 - INFO - Processed 191800000 reads so far
2011-05-19 21:58:17,540 - INFO - Processed 191900000 reads so far
2011-05-19 21:58:29,390 - INFO - Processed 192000000 reads so far
2011-05-19 21:58:38,111 - INFO - Processed 192100000 reads so far
2011-05-19 21:58:48,184 - INFO - Processed 192200000 reads so far
2011-05-19 21:58:56,807 - INFO - Processed 192300000 reads so far
2011-05-19 21:59:01,542 - INFO - Processed 192400000 reads so far
2011-05-19 21:59:06,105 - INFO - Processed 192500000 reads so far
2011-05-19 21:59:11,449 - INFO - Processed 192600000 reads so far
2011-05-19 21:59:15,635 - INFO - Processed 192700000 reads so far
2011-05-19 21:59:20,019 - INFO - Processed 192800000 reads so far
2011-05-19 21:59:26,631 - INFO - Processed 192900000 reads so far
2011-05-19 21:59:31,117 - INFO - Processed 193000000 reads so far
2011-05-19 21:59:34,559 - INFO - Processed 193100000 reads so far
2011-05-19 21:59:39,063 - INFO - Processed 193200000 reads so far
2011-05-19 21:59:43,817 - INFO - Processed 193300000 reads so far
2011-05-19 21:59:48,096 - INFO - Processed 193400000 reads so far
2011-05-19 21:59:52,420 - INFO - Processed 193500000 reads so far
2011-05-19 21:59:56,299 - INFO - Processed 193600000 reads so far
2011-05-19 22:00:00,322 - INFO - Processed 193700000 reads so far
2011-05-19 22:00:05,593 - INFO - Processed 193800000 reads so far
2011-05-19 22:00:09,903 - INFO - Processed 193900000 reads so far
2011-05-19 22:00:17,470 - INFO - Processed 194000000 reads so far
2011-05-19 22:00:22,827 - INFO - Processed 194100000 reads so far
2011-05-19 22:00:27,012 - INFO - Processed 194200000 reads so far
2011-05-19 22:00:31,281 - INFO - Processed 194300000 reads so far
2011-05-19 22:00:36,158 - INFO - Processed 194400000 reads so far
2011-05-19 22:00:40,193 - INFO - Processed 194500000 reads so far
2011-05-19 22:00:44,371 - INFO - Processed 194600000 reads so far
2011-05-19 22:00:50,655 - INFO - Processed 194700000 reads so far
2011-05-19 22:00:52,262 - INFO - Finished loading data. Outputting QC metrics
2011-05-19 22:01:29,010 - INFO - Finished outputting QC metrics
2011-05-19 22:01:29,179 - INFO - Finished generating QC metrics