2011-05-20 11:53:42,446 - INFO - Generating QC metrics for BAM File ['WTCHG_11822.bam']
2011-05-20 11:53:42,447 - INFO - Output will go to WTCHG_11822.qc.txt.tmp
2011-05-20 11:53:42,447 - INFO - Reading GC Map from file /data/Genomes/gcMap/Mouse37.gcMap.gz
2011-05-20 11:56:27,374 - INFO - Finished reading GC Map
2011-05-20 11:56:27,392 - INFO - Reading CDS from exon definition file /data/Genomes/annotation/Mouse37.refGene.txt.gz
2011-05-20 11:56:30,086 - INFO - Read 382138 exons (33804740 nucleotides) for 32 chromosomes
2011-05-20 11:56:30,087 - INFO - Computing coverage cut-off
2011-05-20 11:56:30,087 - INFO - Retrieving BAM file coverage info from samtools pileup
2011-05-20 11:56:35,869 - INFO - Processed 1000000 pile-up sites
2011-05-20 11:56:40,808 - INFO - Processed 2000000 pile-up sites
2011-05-20 11:56:46,194 - INFO - Processed 3000000 pile-up sites
2011-05-20 11:56:53,776 - INFO - Processed 4000000 pile-up sites
2011-05-20 11:56:59,689 - INFO - Processed 5000000 pile-up sites
2011-05-20 11:57:05,372 - INFO - Processed 6000000 pile-up sites
2011-05-20 11:57:10,418 - INFO - Processed 7000000 pile-up sites
2011-05-20 11:57:15,908 - INFO - Processed 8000000 pile-up sites
2011-05-20 11:57:21,297 - INFO - Processed 9000000 pile-up sites
2011-05-20 11:57:28,605 - INFO - Processed 10000000 pile-up sites
2011-05-20 11:57:34,239 - INFO - Processed 11000000 pile-up sites
2011-05-20 11:57:40,152 - INFO - Processed 12000000 pile-up sites
2011-05-20 11:57:45,035 - INFO - Processed 13000000 pile-up sites
2011-05-20 11:57:50,114 - INFO - Processed 14000000 pile-up sites
2011-05-20 11:57:54,679 - INFO - Processed 15000000 pile-up sites
2011-05-20 11:58:00,548 - INFO - Processed 16000000 pile-up sites
2011-05-20 11:58:05,386 - INFO - Processed 17000000 pile-up sites
2011-05-20 11:58:12,866 - INFO - Processed 18000000 pile-up sites
2011-05-20 11:58:18,179 - INFO - Processed 19000000 pile-up sites
2011-05-20 11:58:23,065 - INFO - Processed 20000000 pile-up sites
2011-05-20 11:58:28,858 - INFO - Processed 21000000 pile-up sites
2011-05-20 11:58:34,754 - INFO - Processed 22000000 pile-up sites
2011-05-20 11:58:40,425 - INFO - Processed 23000000 pile-up sites
2011-05-20 11:58:45,655 - INFO - Processed 24000000 pile-up sites
2011-05-20 11:58:51,368 - INFO - Processed 25000000 pile-up sites
2011-05-20 11:58:58,603 - INFO - Processed 26000000 pile-up sites
2011-05-20 11:59:04,708 - INFO - Processed 27000000 pile-up sites
2011-05-20 11:59:09,676 - INFO - Processed 28000000 pile-up sites
2011-05-20 11:59:14,507 - INFO - Processed 29000000 pile-up sites
2011-05-20 11:59:19,586 - INFO - Processed 30000000 pile-up sites
2011-05-20 11:59:25,677 - INFO - Processed 31000000 pile-up sites
2011-05-20 11:59:30,975 - INFO - Processed 32000000 pile-up sites
2011-05-20 11:59:36,858 - INFO - Processed 33000000 pile-up sites
2011-05-20 11:59:42,648 - INFO - Processed 34000000 pile-up sites
2011-05-20 11:59:44,414 - INFO - Finished processing pile-up on 34382230 sites (200000004 nucleotides)
2011-05-20 11:59:44,415 - INFO - Coverage cut-off value is 24
2011-05-20 11:59:44,415 - INFO - Loading data into QC data manager
2011-05-20 11:59:45,035 - INFO - Reading data from BAM file WTCHG_11822.bam. All reads in file will be read
2011-05-20 11:59:45,077 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:2990013-23010013
2011-05-20 11:59:56,230 - INFO - Processed 100000 reads so far
2011-05-20 12:00:08,804 - INFO - Processed 200000 reads so far
2011-05-20 12:00:21,100 - INFO - Processed 300000 reads so far
2011-05-20 12:00:33,749 - INFO - Processed 400000 reads so far
2011-05-20 12:00:45,616 - INFO - Processed 500000 reads so far
2011-05-20 12:00:58,845 - INFO - Processed 600000 reads so far
2011-05-20 12:01:11,606 - INFO - Processed 700000 reads so far
2011-05-20 12:01:23,818 - INFO - Processed 800000 reads so far
2011-05-20 12:01:35,648 - INFO - Processed 900000 reads so far
2011-05-20 12:01:48,598 - INFO - Processed 1000000 reads so far
2011-05-20 12:02:01,176 - INFO - Processed 1100000 reads so far
2011-05-20 12:02:08,518 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:22990016-43010016
2011-05-20 12:02:13,345 - INFO - Processed 1200000 reads so far
2011-05-20 12:02:24,670 - INFO - Processed 1300000 reads so far
2011-05-20 12:02:35,487 - INFO - Processed 1400000 reads so far
2011-05-20 12:02:46,663 - INFO - Processed 1500000 reads so far
2011-05-20 12:02:59,173 - INFO - Processed 1600000 reads so far
2011-05-20 12:03:13,835 - INFO - Processed 1700000 reads so far
2011-05-20 12:03:25,401 - INFO - Processed 1800000 reads so far
2011-05-20 12:03:36,823 - INFO - Processed 1900000 reads so far
2011-05-20 12:03:48,934 - INFO - Processed 2000000 reads so far
2011-05-20 12:04:04,096 - INFO - Processed 2100000 reads so far
2011-05-20 12:04:16,470 - INFO - Processed 2200000 reads so far
2011-05-20 12:04:25,920 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:42990075-63010075
2011-05-20 12:04:27,689 - INFO - Processed 2300000 reads so far
2011-05-20 12:04:39,428 - INFO - Processed 2400000 reads so far
2011-05-20 12:04:50,758 - INFO - Processed 2500000 reads so far
2011-05-20 12:05:02,127 - INFO - Processed 2600000 reads so far
2011-05-20 12:05:13,146 - INFO - Processed 2700000 reads so far
2011-05-20 12:05:24,376 - INFO - Processed 2800000 reads so far
2011-05-20 12:05:34,939 - INFO - Processed 2900000 reads so far
2011-05-20 12:05:44,518 - INFO - Processed 3000000 reads so far
2011-05-20 12:05:54,117 - INFO - Processed 3100000 reads so far
2011-05-20 12:06:04,750 - INFO - Processed 3200000 reads so far
2011-05-20 12:06:16,675 - INFO - Processed 3300000 reads so far
2011-05-20 12:06:29,605 - INFO - Processed 3400000 reads so far
2011-05-20 12:06:32,417 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:62990115-83010115
2011-05-20 12:06:40,267 - INFO - Processed 3500000 reads so far
2011-05-20 12:06:52,592 - INFO - Processed 3600000 reads so far
2011-05-20 12:07:06,946 - INFO - Processed 3700000 reads so far
2011-05-20 12:07:22,173 - INFO - Processed 3800000 reads so far
2011-05-20 12:07:34,408 - INFO - Processed 3900000 reads so far
2011-05-20 12:07:47,341 - INFO - Processed 4000000 reads so far
2011-05-20 12:07:58,731 - INFO - Processed 4100000 reads so far
2011-05-20 12:08:11,134 - INFO - Processed 4200000 reads so far
2011-05-20 12:08:22,276 - INFO - Processed 4300000 reads so far
2011-05-20 12:08:33,905 - INFO - Processed 4400000 reads so far
2011-05-20 12:08:45,327 - INFO - Processed 4500000 reads so far
2011-05-20 12:08:56,544 - INFO - Processed 4600000 reads so far
2011-05-20 12:08:59,362 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:82990116-103010116
2011-05-20 12:09:09,807 - INFO - Processed 4700000 reads so far
2011-05-20 12:09:21,360 - INFO - Processed 4800000 reads so far
2011-05-20 12:09:34,159 - INFO - Processed 4900000 reads so far
2011-05-20 12:09:46,771 - INFO - Processed 5000000 reads so far
2011-05-20 12:09:58,194 - INFO - Processed 5100000 reads so far
2011-05-20 12:10:09,454 - INFO - Processed 5200000 reads so far
2011-05-20 12:10:21,838 - INFO - Processed 5300000 reads so far
2011-05-20 12:10:34,505 - INFO - Processed 5400000 reads so far
2011-05-20 12:10:47,970 - INFO - Processed 5500000 reads so far
2011-05-20 12:11:11,089 - INFO - Processed 5600000 reads so far
2011-05-20 12:11:23,706 - INFO - Processed 5700000 reads so far
2011-05-20 12:11:38,368 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:102990122-123010122
2011-05-20 12:11:40,559 - INFO - Processed 5800000 reads so far
2011-05-20 12:12:00,331 - INFO - Processed 5900000 reads so far
2011-05-20 12:12:15,534 - INFO - Processed 6000000 reads so far
2011-05-20 12:12:31,192 - INFO - Processed 6100000 reads so far
2011-05-20 12:12:42,056 - INFO - Processed 6200000 reads so far
2011-05-20 12:12:53,498 - INFO - Processed 6300000 reads so far
2011-05-20 12:13:05,419 - INFO - Processed 6400000 reads so far
2011-05-20 12:13:22,088 - INFO - Processed 6500000 reads so far
2011-05-20 12:13:35,335 - INFO - Processed 6600000 reads so far
2011-05-20 12:13:55,399 - INFO - Processed 6700000 reads so far
2011-05-20 12:14:07,258 - INFO - Processed 6800000 reads so far
2011-05-20 12:14:18,668 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:122990162-143010162
2011-05-20 12:14:19,218 - INFO - Processed 6900000 reads so far
2011-05-20 12:14:34,625 - INFO - Processed 7000000 reads so far
2011-05-20 12:14:48,669 - INFO - Processed 7100000 reads so far
2011-05-20 12:15:09,281 - INFO - Processed 7200000 reads so far
2011-05-20 12:15:21,942 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:2990001-23010001
2011-05-20 12:15:22,361 - INFO - Processed 7300000 reads so far
2011-05-20 12:15:33,152 - INFO - Processed 7400000 reads so far
2011-05-20 12:15:46,950 - INFO - Processed 7500000 reads so far
2011-05-20 12:15:58,370 - INFO - Processed 7600000 reads so far
2011-05-20 12:16:10,132 - INFO - Processed 7700000 reads so far
2011-05-20 12:16:21,031 - INFO - Processed 7800000 reads so far
2011-05-20 12:16:35,069 - INFO - Processed 7900000 reads so far
2011-05-20 12:16:44,808 - INFO - Processed 8000000 reads so far
2011-05-20 12:16:57,678 - INFO - Processed 8100000 reads so far
2011-05-20 12:17:07,835 - INFO - Processed 8200000 reads so far
2011-05-20 12:17:19,144 - INFO - Processed 8300000 reads so far
2011-05-20 12:17:30,534 - INFO - Processed 8400000 reads so far
2011-05-20 12:17:42,203 - INFO - Processed 8500000 reads so far
2011-05-20 12:17:50,152 - INFO - Processed 8600000 reads so far
2011-05-20 12:17:58,579 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:22990007-43010007
2011-05-20 12:18:04,655 - INFO - Processed 8700000 reads so far
2011-05-20 12:18:15,154 - INFO - Processed 8800000 reads so far
2011-05-20 12:18:25,833 - INFO - Processed 8900000 reads so far
2011-05-20 12:18:38,077 - INFO - Processed 9000000 reads so far
2011-05-20 12:18:49,204 - INFO - Processed 9100000 reads so far
2011-05-20 12:19:00,306 - INFO - Processed 9200000 reads so far
2011-05-20 12:19:11,170 - INFO - Processed 9300000 reads so far
2011-05-20 12:19:22,047 - INFO - Processed 9400000 reads so far
2011-05-20 12:19:32,979 - INFO - Processed 9500000 reads so far
2011-05-20 12:19:44,715 - INFO - Processed 9600000 reads so far
2011-05-20 12:19:56,992 - INFO - Processed 9700000 reads so far
2011-05-20 12:20:05,806 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:42990029-63010029
2011-05-20 12:20:09,316 - INFO - Processed 9800000 reads so far
2011-05-20 12:20:22,584 - INFO - Processed 9900000 reads so far
2011-05-20 12:20:35,767 - INFO - Processed 10000000 reads so far
2011-05-20 12:20:47,581 - INFO - Processed 10100000 reads so far
2011-05-20 12:20:58,702 - INFO - Processed 10200000 reads so far
2011-05-20 12:21:11,770 - INFO - Processed 10300000 reads so far
2011-05-20 12:21:24,107 - INFO - Processed 10400000 reads so far
2011-05-20 12:21:36,096 - INFO - Processed 10500000 reads so far
2011-05-20 12:21:49,400 - INFO - Processed 10600000 reads so far
2011-05-20 12:21:59,840 - INFO - Processed 10700000 reads so far
2011-05-20 12:22:11,925 - INFO - Processed 10800000 reads so far
2011-05-20 12:22:24,073 - INFO - Processed 10900000 reads so far
2011-05-20 12:22:36,003 - INFO - Processed 11000000 reads so far
2011-05-20 12:22:38,806 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:62990048-83010048
2011-05-20 12:22:48,710 - INFO - Processed 11100000 reads so far
2011-05-20 12:23:00,564 - INFO - Processed 11200000 reads so far
2011-05-20 12:23:12,489 - INFO - Processed 11300000 reads so far
2011-05-20 12:23:27,694 - INFO - Processed 11400000 reads so far
2011-05-20 12:23:39,032 - INFO - Processed 11500000 reads so far
2011-05-20 12:23:50,945 - INFO - Processed 11600000 reads so far
2011-05-20 12:24:02,707 - INFO - Processed 11700000 reads so far
2011-05-20 12:24:12,629 - INFO - Processed 11800000 reads so far
2011-05-20 12:24:23,928 - INFO - Processed 11900000 reads so far
2011-05-20 12:24:36,298 - INFO - Processed 12000000 reads so far
2011-05-20 12:24:47,739 - INFO - Processed 12100000 reads so far
2011-05-20 12:24:58,583 - INFO - Processed 12200000 reads so far
2011-05-20 12:25:05,435 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:82990074-103010074
2011-05-20 12:25:09,871 - INFO - Processed 12300000 reads so far
2011-05-20 12:25:21,413 - INFO - Processed 12400000 reads so far
2011-05-20 12:25:33,056 - INFO - Processed 12500000 reads so far
2011-05-20 12:25:44,095 - INFO - Processed 12600000 reads so far
2011-05-20 12:25:55,504 - INFO - Processed 12700000 reads so far
2011-05-20 12:26:05,504 - INFO - Processed 12800000 reads so far
2011-05-20 12:26:16,702 - INFO - Processed 12900000 reads so far
2011-05-20 12:26:27,669 - INFO - Processed 13000000 reads so far
2011-05-20 12:26:39,359 - INFO - Processed 13100000 reads so far
2011-05-20 12:26:53,264 - INFO - Processed 13200000 reads so far
2011-05-20 12:27:04,313 - INFO - Processed 13300000 reads so far
2011-05-20 12:27:16,944 - INFO - Processed 13400000 reads so far
2011-05-20 12:27:21,984 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:102990105-123010105
2011-05-20 12:27:28,552 - INFO - Processed 13500000 reads so far
2011-05-20 12:27:40,169 - INFO - Processed 13600000 reads so far
2011-05-20 12:27:52,809 - INFO - Processed 13700000 reads so far
2011-05-20 12:28:05,506 - INFO - Processed 13800000 reads so far
2011-05-20 12:28:15,977 - INFO - Processed 13900000 reads so far
2011-05-20 12:28:27,712 - INFO - Processed 14000000 reads so far
2011-05-20 12:28:39,314 - INFO - Processed 14100000 reads so far
2011-05-20 12:28:50,922 - INFO - Processed 14200000 reads so far
2011-05-20 12:29:02,698 - INFO - Processed 14300000 reads so far
2011-05-20 12:29:16,691 - INFO - Processed 14400000 reads so far
2011-05-20 12:29:28,227 - INFO - Processed 14500000 reads so far
2011-05-20 12:29:39,840 - INFO - Processed 14600000 reads so far
2011-05-20 12:29:45,577 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:2990023-23010023
2011-05-20 12:29:50,565 - INFO - Processed 14700000 reads so far
2011-05-20 12:30:01,362 - INFO - Processed 14800000 reads so far
2011-05-20 12:30:12,953 - INFO - Processed 14900000 reads so far
2011-05-20 12:30:24,963 - INFO - Processed 15000000 reads so far
2011-05-20 12:30:35,834 - INFO - Processed 15100000 reads so far
2011-05-20 12:30:46,432 - INFO - Processed 15200000 reads so far
2011-05-20 12:30:58,212 - INFO - Processed 15300000 reads so far
2011-05-20 12:31:09,165 - INFO - Processed 15400000 reads so far
2011-05-20 12:31:20,799 - INFO - Processed 15500000 reads so far
2011-05-20 12:31:32,861 - INFO - Processed 15600000 reads so far
2011-05-20 12:31:44,177 - INFO - Processed 15700000 reads so far
2011-05-20 12:32:00,098 - INFO - Processed 15800000 reads so far
2011-05-20 12:32:11,985 - INFO - Processed 15900000 reads so far
2011-05-20 12:32:25,400 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:22990286-43010286
2011-05-20 12:32:26,253 - INFO - Processed 16000000 reads so far
2011-05-20 12:32:37,633 - INFO - Processed 16100000 reads so far
2011-05-20 12:32:50,216 - INFO - Processed 16200000 reads so far
2011-05-20 12:33:01,061 - INFO - Processed 16300000 reads so far
2011-05-20 12:33:12,757 - INFO - Processed 16400000 reads so far
2011-05-20 12:33:22,342 - INFO - Processed 16500000 reads so far
2011-05-20 12:33:33,322 - INFO - Processed 16600000 reads so far
2011-05-20 12:33:43,498 - INFO - Processed 16700000 reads so far
2011-05-20 12:33:55,752 - INFO - Processed 16800000 reads so far
2011-05-20 12:34:07,734 - INFO - Processed 16900000 reads so far
2011-05-20 12:34:18,659 - INFO - Processed 17000000 reads so far
2011-05-20 12:34:37,562 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:42990288-63010288
2011-05-20 12:34:38,558 - INFO - Processed 17100000 reads so far
2011-05-20 12:34:50,267 - INFO - Processed 17200000 reads so far
2011-05-20 12:35:02,377 - INFO - Processed 17300000 reads so far
2011-05-20 12:35:13,480 - INFO - Processed 17400000 reads so far
2011-05-20 12:35:24,822 - INFO - Processed 17500000 reads so far
2011-05-20 12:35:35,284 - INFO - Processed 17600000 reads so far
2011-05-20 12:35:46,977 - INFO - Processed 17700000 reads so far
2011-05-20 12:35:57,651 - INFO - Processed 17800000 reads so far
2011-05-20 12:36:10,904 - INFO - Processed 17900000 reads so far
2011-05-20 12:36:24,167 - INFO - Processed 18000000 reads so far
2011-05-20 12:36:35,856 - INFO - Processed 18100000 reads so far
2011-05-20 12:36:43,805 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:62990303-83010303
2011-05-20 12:36:49,250 - INFO - Processed 18200000 reads so far
2011-05-20 12:37:00,767 - INFO - Processed 18300000 reads so far
2011-05-20 12:37:12,762 - INFO - Processed 18400000 reads so far
2011-05-20 12:37:26,269 - INFO - Processed 18500000 reads so far
2011-05-20 12:37:37,339 - INFO - Processed 18600000 reads so far
2011-05-20 12:37:49,904 - INFO - Processed 18700000 reads so far
2011-05-20 12:38:02,225 - INFO - Processed 18800000 reads so far
2011-05-20 12:38:14,195 - INFO - Processed 18900000 reads so far
2011-05-20 12:38:26,652 - INFO - Processed 19000000 reads so far
2011-05-20 12:38:39,175 - INFO - Processed 19100000 reads so far
2011-05-20 12:38:52,395 - INFO - Processed 19200000 reads so far
2011-05-20 12:39:04,786 - INFO - Processed 19300000 reads so far
2011-05-20 12:39:05,122 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:82990385-103010385
2011-05-20 12:39:16,931 - INFO - Processed 19400000 reads so far
2011-05-20 12:39:28,452 - INFO - Processed 19500000 reads so far
2011-05-20 12:39:40,947 - INFO - Processed 19600000 reads so far
2011-05-20 12:39:53,312 - INFO - Processed 19700000 reads so far
2011-05-20 12:40:06,623 - INFO - Processed 19800000 reads so far
2011-05-20 12:40:18,194 - INFO - Processed 19900000 reads so far
2011-05-20 12:40:32,766 - INFO - Processed 20000000 reads so far
2011-05-20 12:40:44,945 - INFO - Processed 20100000 reads so far
2011-05-20 12:40:57,791 - INFO - Processed 20200000 reads so far
2011-05-20 12:41:09,156 - INFO - Processed 20300000 reads so far
2011-05-20 12:41:22,295 - INFO - Processed 20400000 reads so far
2011-05-20 12:41:29,628 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:102990396-123010396
2011-05-20 12:41:34,215 - INFO - Processed 20500000 reads so far
2011-05-20 12:41:46,655 - INFO - Processed 20600000 reads so far
2011-05-20 12:41:57,947 - INFO - Processed 20700000 reads so far
2011-05-20 12:42:10,426 - INFO - Processed 20800000 reads so far
2011-05-20 12:42:21,115 - INFO - Processed 20900000 reads so far
2011-05-20 12:42:33,456 - INFO - Processed 21000000 reads so far
2011-05-20 12:42:44,300 - INFO - Processed 21100000 reads so far
2011-05-20 12:42:55,741 - INFO - Processed 21200000 reads so far
2011-05-20 12:43:06,257 - INFO - Processed 21300000 reads so far
2011-05-20 12:43:17,100 - INFO - Processed 21400000 reads so far
2011-05-20 12:43:27,319 - INFO - Processed 21500000 reads so far
2011-05-20 12:43:37,897 - INFO - Processed 21600000 reads so far
2011-05-20 12:43:44,626 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:2990000-23010000
2011-05-20 12:43:49,015 - INFO - Processed 21700000 reads so far
2011-05-20 12:43:59,957 - INFO - Processed 21800000 reads so far
2011-05-20 12:44:12,603 - INFO - Processed 21900000 reads so far
2011-05-20 12:44:21,474 - INFO - Processed 22000000 reads so far
2011-05-20 12:44:28,981 - INFO - Processed 22100000 reads so far
2011-05-20 12:44:36,463 - INFO - Processed 22200000 reads so far
2011-05-20 12:44:47,303 - INFO - Processed 22300000 reads so far
2011-05-20 12:44:59,221 - INFO - Processed 22400000 reads so far
2011-05-20 12:45:09,060 - INFO - Processed 22500000 reads so far
2011-05-20 12:45:21,909 - INFO - Processed 22600000 reads so far
2011-05-20 12:45:32,991 - INFO - Processed 22700000 reads so far
2011-05-20 12:45:38,656 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:22990010-43010010
2011-05-20 12:45:42,607 - INFO - Processed 22800000 reads so far
2011-05-20 12:45:54,659 - INFO - Processed 22900000 reads so far
2011-05-20 12:46:03,955 - INFO - Processed 23000000 reads so far
2011-05-20 12:46:13,741 - INFO - Processed 23100000 reads so far
2011-05-20 12:46:22,885 - INFO - Processed 23200000 reads so far
2011-05-20 12:46:31,970 - INFO - Processed 23300000 reads so far
2011-05-20 12:46:43,497 - INFO - Processed 23400000 reads so far
2011-05-20 12:46:55,488 - INFO - Processed 23500000 reads so far
2011-05-20 12:47:07,076 - INFO - Processed 23600000 reads so far
2011-05-20 12:47:17,554 - INFO - Processed 23700000 reads so far
2011-05-20 12:47:28,556 - INFO - Processed 23800000 reads so far
2011-05-20 12:47:40,239 - INFO - Processed 23900000 reads so far
2011-05-20 12:47:46,143 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:42990011-63010011
2011-05-20 12:47:51,536 - INFO - Processed 24000000 reads so far
2011-05-20 12:48:02,293 - INFO - Processed 24100000 reads so far
2011-05-20 12:48:12,011 - INFO - Processed 24200000 reads so far
2011-05-20 12:48:21,253 - INFO - Processed 24300000 reads so far
2011-05-20 12:48:34,050 - INFO - Processed 24400000 reads so far
2011-05-20 12:48:44,969 - INFO - Processed 24500000 reads so far
2011-05-20 12:48:55,845 - INFO - Processed 24600000 reads so far
2011-05-20 12:49:06,964 - INFO - Processed 24700000 reads so far
2011-05-20 12:49:17,384 - INFO - Processed 24800000 reads so far
2011-05-20 12:49:27,975 - INFO - Processed 24900000 reads so far
2011-05-20 12:49:41,395 - INFO - Processed 25000000 reads so far
2011-05-20 12:49:51,347 - INFO - Processed 25100000 reads so far
2011-05-20 12:50:01,436 - INFO - Processed 25200000 reads so far
2011-05-20 12:50:02,235 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:62990017-83010017
2011-05-20 12:50:12,956 - INFO - Processed 25300000 reads so far
2011-05-20 12:50:23,696 - INFO - Processed 25400000 reads so far
2011-05-20 12:50:33,994 - INFO - Processed 25500000 reads so far
2011-05-20 12:50:43,988 - INFO - Processed 25600000 reads so far
2011-05-20 12:50:53,740 - INFO - Processed 25700000 reads so far
2011-05-20 12:51:07,279 - INFO - Processed 25800000 reads so far
2011-05-20 12:51:17,571 - INFO - Processed 25900000 reads so far
2011-05-20 12:51:27,964 - INFO - Processed 26000000 reads so far
2011-05-20 12:51:38,066 - INFO - Processed 26100000 reads so far
2011-05-20 12:51:48,593 - INFO - Processed 26200000 reads so far
2011-05-20 12:51:58,455 - INFO - Processed 26300000 reads so far
2011-05-20 12:52:04,650 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:82990020-103010020
2011-05-20 12:52:08,577 - INFO - Processed 26400000 reads so far
2011-05-20 12:52:18,462 - INFO - Processed 26500000 reads so far
2011-05-20 12:52:29,214 - INFO - Processed 26600000 reads so far
2011-05-20 12:52:39,735 - INFO - Processed 26700000 reads so far
2011-05-20 12:52:49,999 - INFO - Processed 26800000 reads so far
2011-05-20 12:53:00,725 - INFO - Processed 26900000 reads so far
2011-05-20 12:53:11,013 - INFO - Processed 27000000 reads so far
2011-05-20 12:53:22,169 - INFO - Processed 27100000 reads so far
2011-05-20 12:53:32,446 - INFO - Processed 27200000 reads so far
2011-05-20 12:53:42,741 - INFO - Processed 27300000 reads so far
2011-05-20 12:53:52,241 - INFO - Processed 27400000 reads so far
2011-05-20 12:53:58,538 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:102990100-123010100
2011-05-20 12:54:03,389 - INFO - Processed 27500000 reads so far
2011-05-20 12:54:14,497 - INFO - Processed 27600000 reads so far
2011-05-20 12:54:25,861 - INFO - Processed 27700000 reads so far
2011-05-20 12:54:36,664 - INFO - Processed 27800000 reads so far
2011-05-20 12:54:47,406 - INFO - Processed 27900000 reads so far
2011-05-20 12:54:55,532 - INFO - Processed 28000000 reads so far
2011-05-20 12:55:04,156 - INFO - Processed 28100000 reads so far
2011-05-20 12:55:14,280 - INFO - Processed 28200000 reads so far
2011-05-20 12:55:25,046 - INFO - Processed 28300000 reads so far
2011-05-20 12:55:35,317 - INFO - Processed 28400000 reads so far
2011-05-20 12:55:38,244 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13_random:0-20010000
2011-05-20 12:55:39,510 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:2990004-23010004
2011-05-20 12:55:46,183 - INFO - Processed 28500000 reads so far
2011-05-20 12:55:58,062 - INFO - Processed 28600000 reads so far
2011-05-20 12:56:07,195 - INFO - Processed 28700000 reads so far
2011-05-20 12:56:15,677 - INFO - Processed 28800000 reads so far
2011-05-20 12:56:23,963 - INFO - Processed 28900000 reads so far
2011-05-20 12:56:34,935 - INFO - Processed 29000000 reads so far
2011-05-20 12:56:44,879 - INFO - Processed 29100000 reads so far
2011-05-20 12:56:55,038 - INFO - Processed 29200000 reads so far
2011-05-20 12:57:05,892 - INFO - Processed 29300000 reads so far
2011-05-20 12:57:16,055 - INFO - Processed 29400000 reads so far
2011-05-20 12:57:26,519 - INFO - Processed 29500000 reads so far
2011-05-20 12:57:28,320 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:22990013-43010013
2011-05-20 12:57:37,078 - INFO - Processed 29600000 reads so far
2011-05-20 12:57:47,906 - INFO - Processed 29700000 reads so far
2011-05-20 12:57:58,871 - INFO - Processed 29800000 reads so far
2011-05-20 12:58:10,395 - INFO - Processed 29900000 reads so far
2011-05-20 12:58:32,666 - INFO - Processed 30000000 reads so far
2011-05-20 12:58:43,960 - INFO - Processed 30100000 reads so far
2011-05-20 12:58:54,986 - INFO - Processed 30200000 reads so far
2011-05-20 12:59:03,658 - INFO - Processed 30300000 reads so far
2011-05-20 12:59:11,904 - INFO - Processed 30400000 reads so far
2011-05-20 12:59:20,877 - INFO - Processed 30500000 reads so far
2011-05-20 12:59:31,206 - INFO - Processed 30600000 reads so far
2011-05-20 12:59:41,254 - INFO - Processed 30700000 reads so far
2011-05-20 12:59:44,978 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:42990016-63010016
2011-05-20 12:59:51,024 - INFO - Processed 30800000 reads so far
2011-05-20 13:00:00,906 - INFO - Processed 30900000 reads so far
2011-05-20 13:00:12,731 - INFO - Processed 31000000 reads so far
2011-05-20 13:00:23,105 - INFO - Processed 31100000 reads so far
2011-05-20 13:00:33,486 - INFO - Processed 31200000 reads so far
2011-05-20 13:00:46,020 - INFO - Processed 31300000 reads so far
2011-05-20 13:00:56,366 - INFO - Processed 31400000 reads so far
2011-05-20 13:01:07,444 - INFO - Processed 31500000 reads so far
2011-05-20 13:01:18,934 - INFO - Processed 31600000 reads so far
2011-05-20 13:01:30,141 - INFO - Processed 31700000 reads so far
2011-05-20 13:01:40,864 - INFO - Processed 31800000 reads so far
2011-05-20 13:01:52,551 - INFO - Processed 31900000 reads so far
2011-05-20 13:01:54,441 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:62990054-83010054
2011-05-20 13:02:02,935 - INFO - Processed 32000000 reads so far
2011-05-20 13:02:13,140 - INFO - Processed 32100000 reads so far
2011-05-20 13:02:23,540 - INFO - Processed 32200000 reads so far
2011-05-20 13:02:33,529 - INFO - Processed 32300000 reads so far
2011-05-20 13:02:42,935 - INFO - Processed 32400000 reads so far
2011-05-20 13:02:53,870 - INFO - Processed 32500000 reads so far
2011-05-20 13:03:04,883 - INFO - Processed 32600000 reads so far
2011-05-20 13:03:16,371 - INFO - Processed 32700000 reads so far
2011-05-20 13:03:27,406 - INFO - Processed 32800000 reads so far
2011-05-20 13:03:38,279 - INFO - Processed 32900000 reads so far
2011-05-20 13:03:48,583 - INFO - Processed 33000000 reads so far
2011-05-20 13:03:58,970 - INFO - Processed 33100000 reads so far
2011-05-20 13:04:01,500 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:82990066-103010066
2011-05-20 13:04:09,621 - INFO - Processed 33200000 reads so far
2011-05-20 13:04:20,723 - INFO - Processed 33300000 reads so far
2011-05-20 13:04:31,696 - INFO - Processed 33400000 reads so far
2011-05-20 13:04:44,779 - INFO - Processed 33500000 reads so far
2011-05-20 13:04:55,479 - INFO - Processed 33600000 reads so far
2011-05-20 13:05:06,514 - INFO - Processed 33700000 reads so far
2011-05-20 13:05:18,590 - INFO - Processed 33800000 reads so far
2011-05-20 13:05:28,935 - INFO - Processed 33900000 reads so far
2011-05-20 13:05:40,522 - INFO - Processed 34000000 reads so far
2011-05-20 13:05:52,647 - INFO - Processed 34100000 reads so far
2011-05-20 13:05:56,227 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:102990086-123010086
2011-05-20 13:06:03,862 - INFO - Processed 34200000 reads so far
2011-05-20 13:06:15,186 - INFO - Processed 34300000 reads so far
2011-05-20 13:06:25,994 - INFO - Processed 34400000 reads so far
2011-05-20 13:06:36,528 - INFO - Processed 34500000 reads so far
2011-05-20 13:06:47,913 - INFO - Processed 34600000 reads so far
2011-05-20 13:06:59,061 - INFO - Processed 34700000 reads so far
2011-05-20 13:07:11,088 - INFO - Processed 34800000 reads so far
2011-05-20 13:07:22,111 - INFO - Processed 34900000 reads so far
2011-05-20 13:07:33,051 - INFO - Processed 35000000 reads so far
2011-05-20 13:07:43,536 - INFO - Processed 35100000 reads so far
2011-05-20 13:07:55,474 - INFO - Processed 35200000 reads so far
2011-05-20 13:07:57,836 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:122990114-143010114
2011-05-20 13:08:06,179 - INFO - Processed 35300000 reads so far
2011-05-20 13:08:12,503 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:2990033-23010033
2011-05-20 13:08:19,779 - INFO - Processed 35400000 reads so far
2011-05-20 13:08:30,763 - INFO - Processed 35500000 reads so far
2011-05-20 13:08:41,767 - INFO - Processed 35600000 reads so far
2011-05-20 13:08:52,929 - INFO - Processed 35700000 reads so far
2011-05-20 13:09:03,039 - INFO - Processed 35800000 reads so far
2011-05-20 13:09:13,349 - INFO - Processed 35900000 reads so far
2011-05-20 13:09:24,430 - INFO - Processed 36000000 reads so far
2011-05-20 13:09:44,163 - INFO - Processed 36100000 reads so far
2011-05-20 13:10:02,154 - INFO - Processed 36200000 reads so far
2011-05-20 13:10:14,287 - INFO - Processed 36300000 reads so far
2011-05-20 13:10:25,832 - INFO - Processed 36400000 reads so far
2011-05-20 13:10:32,654 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:22990035-43010035
2011-05-20 13:10:41,882 - INFO - Processed 36500000 reads so far
2011-05-20 13:11:05,335 - INFO - Processed 36600000 reads so far
2011-05-20 13:11:19,957 - INFO - Processed 36700000 reads so far
2011-05-20 13:11:27,714 - INFO - Processed 36800000 reads so far
2011-05-20 13:11:45,904 - INFO - Processed 36900000 reads so far
2011-05-20 13:11:59,738 - INFO - Processed 37000000 reads so far
2011-05-20 13:12:11,651 - INFO - Processed 37100000 reads so far
2011-05-20 13:12:21,184 - INFO - Processed 37200000 reads so far
2011-05-20 13:12:28,646 - INFO - Processed 37300000 reads so far
2011-05-20 13:12:49,735 - INFO - Processed 37400000 reads so far
2011-05-20 13:12:57,314 - INFO - Processed 37500000 reads so far
2011-05-20 13:13:04,450 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:42990037-63010037
2011-05-20 13:13:07,587 - INFO - Processed 37600000 reads so far
2011-05-20 13:13:30,529 - INFO - Processed 37700000 reads so far
2011-05-20 13:13:43,033 - INFO - Processed 37800000 reads so far
2011-05-20 13:13:58,925 - INFO - Processed 37900000 reads so far
2011-05-20 13:14:16,879 - INFO - Processed 38000000 reads so far
2011-05-20 13:14:28,676 - INFO - Processed 38100000 reads so far
2011-05-20 13:14:52,111 - INFO - Processed 38200000 reads so far
2011-05-20 13:15:03,057 - INFO - Processed 38300000 reads so far
2011-05-20 13:15:20,668 - INFO - Processed 38400000 reads so far
2011-05-20 13:15:31,619 - INFO - Processed 38500000 reads so far
2011-05-20 13:15:41,262 - INFO - Processed 38600000 reads so far
2011-05-20 13:15:48,626 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:62990070-83010070
2011-05-20 13:15:50,515 - INFO - Processed 38700000 reads so far
2011-05-20 13:15:59,990 - INFO - Processed 38800000 reads so far
2011-05-20 13:16:08,340 - INFO - Processed 38900000 reads so far
2011-05-20 13:16:17,110 - INFO - Processed 39000000 reads so far
2011-05-20 13:16:25,686 - INFO - Processed 39100000 reads so far
2011-05-20 13:16:36,368 - INFO - Processed 39200000 reads so far
2011-05-20 13:16:45,635 - INFO - Processed 39300000 reads so far
2011-05-20 13:16:53,348 - INFO - Processed 39400000 reads so far
2011-05-20 13:17:02,554 - INFO - Processed 39500000 reads so far
2011-05-20 13:17:11,832 - INFO - Processed 39600000 reads so far
2011-05-20 13:17:21,274 - INFO - Processed 39700000 reads so far
2011-05-20 13:17:33,836 - INFO - Processed 39800000 reads so far
2011-05-20 13:17:44,425 - INFO - Processed 39900000 reads so far
2011-05-20 13:17:50,657 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:82990071-103010071
2011-05-20 13:17:55,144 - INFO - Processed 40000000 reads so far
2011-05-20 13:18:05,367 - INFO - Processed 40100000 reads so far
2011-05-20 13:18:16,776 - INFO - Processed 40200000 reads so far
2011-05-20 13:18:27,233 - INFO - Processed 40300000 reads so far
2011-05-20 13:18:39,054 - INFO - Processed 40400000 reads so far
2011-05-20 13:18:51,251 - INFO - Processed 40500000 reads so far
2011-05-20 13:19:01,912 - INFO - Processed 40600000 reads so far
2011-05-20 13:19:14,485 - INFO - Processed 40700000 reads so far
2011-05-20 13:19:25,398 - INFO - Processed 40800000 reads so far
2011-05-20 13:19:35,929 - INFO - Processed 40900000 reads so far
2011-05-20 13:19:47,722 - INFO - Processed 41000000 reads so far
2011-05-20 13:20:01,513 - INFO - Processed 41100000 reads so far
2011-05-20 13:20:12,761 - INFO - Processed 41200000 reads so far
2011-05-20 13:20:15,241 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:102990072-123010072
2011-05-20 13:20:18,470 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16:2990014-23010014
2011-05-20 13:20:24,575 - INFO - Processed 41300000 reads so far
2011-05-20 13:20:35,673 - INFO - Processed 41400000 reads so far
2011-05-20 13:20:47,040 - INFO - Processed 41500000 reads so far
2011-05-20 13:20:58,004 - INFO - Processed 41600000 reads so far
2011-05-20 13:21:08,924 - INFO - Processed 41700000 reads so far
2011-05-20 13:21:19,784 - INFO - Processed 41800000 reads so far
2011-05-20 13:21:31,307 - INFO - Processed 41900000 reads so far
2011-05-20 13:21:42,269 - INFO - Processed 42000000 reads so far
2011-05-20 13:21:53,423 - INFO - Processed 42100000 reads so far
2011-05-20 13:22:04,602 - INFO - Processed 42200000 reads so far
2011-05-20 13:22:15,705 - INFO - Processed 42300000 reads so far
2011-05-20 13:22:27,705 - INFO - Processed 42400000 reads so far
2011-05-20 13:22:37,424 - INFO - Processed 42500000 reads so far
2011-05-20 13:22:41,711 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16:22990053-43010053
2011-05-20 13:22:51,378 - INFO - Processed 42600000 reads so far
2011-05-20 13:23:02,909 - INFO - Processed 42700000 reads so far
2011-05-20 13:23:11,691 - INFO - Processed 42800000 reads so far
2011-05-20 13:23:20,211 - INFO - Processed 42900000 reads so far
2011-05-20 13:23:29,774 - INFO - Processed 43000000 reads so far
2011-05-20 13:23:40,667 - INFO - Processed 43100000 reads so far
2011-05-20 13:23:49,624 - INFO - Processed 43200000 reads so far
2011-05-20 13:24:01,138 - INFO - Processed 43300000 reads so far
2011-05-20 13:24:11,412 - INFO - Processed 43400000 reads so far
2011-05-20 13:24:23,067 - INFO - Processed 43500000 reads so far
2011-05-20 13:24:34,854 - INFO - Processed 43600000 reads so far
2011-05-20 13:24:45,071 - INFO - Processed 43700000 reads so far
2011-05-20 13:24:46,362 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16:42990062-63010062
2011-05-20 13:24:56,170 - INFO - Processed 43800000 reads so far
2011-05-20 13:25:07,602 - INFO - Processed 43900000 reads so far
2011-05-20 13:25:19,645 - INFO - Processed 44000000 reads so far
2011-05-20 13:25:30,965 - INFO - Processed 44100000 reads so far
2011-05-20 13:25:40,321 - INFO - Processed 44200000 reads so far
2011-05-20 13:25:48,163 - INFO - Processed 44300000 reads so far
2011-05-20 13:25:57,463 - INFO - Processed 44400000 reads so far
2011-05-20 13:26:07,386 - INFO - Processed 44500000 reads so far
2011-05-20 13:26:17,455 - INFO - Processed 44600000 reads so far
2011-05-20 13:26:26,980 - INFO - Processed 44700000 reads so far
2011-05-20 13:26:36,142 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16:62990098-83010098
2011-05-20 13:26:36,670 - INFO - Processed 44800000 reads so far
2011-05-20 13:26:46,226 - INFO - Processed 44900000 reads so far
2011-05-20 13:26:55,130 - INFO - Processed 45000000 reads so far
2011-05-20 13:27:03,486 - INFO - Processed 45100000 reads so far
2011-05-20 13:27:13,794 - INFO - Processed 45200000 reads so far
2011-05-20 13:27:23,213 - INFO - Processed 45300000 reads so far
2011-05-20 13:27:33,415 - INFO - Processed 45400000 reads so far
2011-05-20 13:27:43,823 - INFO - Processed 45500000 reads so far
2011-05-20 13:27:53,423 - INFO - Processed 45600000 reads so far
2011-05-20 13:28:03,182 - INFO - Processed 45700000 reads so far
2011-05-20 13:28:14,042 - INFO - Processed 45800000 reads so far
2011-05-20 13:28:16,361 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16:82990111-103010111
2011-05-20 13:28:23,291 - INFO - Processed 45900000 reads so far
2011-05-20 13:28:32,120 - INFO - Processed 46000000 reads so far
2011-05-20 13:28:41,888 - INFO - Processed 46100000 reads so far
2011-05-20 13:28:51,716 - INFO - Processed 46200000 reads so far
2011-05-20 13:29:01,977 - INFO - Processed 46300000 reads so far
2011-05-20 13:29:12,531 - INFO - Processed 46400000 reads so far
2011-05-20 13:29:23,635 - INFO - Processed 46500000 reads so far
2011-05-20 13:29:34,805 - INFO - Processed 46600000 reads so far
2011-05-20 13:29:45,434 - INFO - Processed 46700000 reads so far
2011-05-20 13:29:49,579 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16_random:0-20010088
2011-05-20 13:29:49,609 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17:2989957-23009957
2011-05-20 13:29:55,198 - INFO - Processed 46800000 reads so far
2011-05-20 13:30:05,974 - INFO - Processed 46900000 reads so far
2011-05-20 13:30:13,230 - INFO - Processed 47000000 reads so far
2011-05-20 13:30:19,946 - INFO - Processed 47100000 reads so far
2011-05-20 13:30:30,094 - INFO - Processed 47200000 reads so far
2011-05-20 13:30:42,777 - INFO - Processed 47300000 reads so far
2011-05-20 13:30:53,843 - INFO - Processed 47400000 reads so far
2011-05-20 13:31:05,410 - INFO - Processed 47500000 reads so far
2011-05-20 13:31:16,514 - INFO - Processed 47600000 reads so far
2011-05-20 13:31:27,086 - INFO - Processed 47700000 reads so far
2011-05-20 13:31:39,236 - INFO - Processed 47800000 reads so far
2011-05-20 13:31:49,869 - INFO - Processed 47900000 reads so far
2011-05-20 13:31:57,305 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17:22989965-43009965
2011-05-20 13:32:01,716 - INFO - Processed 48000000 reads so far
2011-05-20 13:32:12,365 - INFO - Processed 48100000 reads so far
2011-05-20 13:32:23,355 - INFO - Processed 48200000 reads so far
2011-05-20 13:32:35,778 - INFO - Processed 48300000 reads so far
2011-05-20 13:32:46,626 - INFO - Processed 48400000 reads so far
2011-05-20 13:32:57,377 - INFO - Processed 48500000 reads so far
2011-05-20 13:33:08,142 - INFO - Processed 48600000 reads so far
2011-05-20 13:33:18,651 - INFO - Processed 48700000 reads so far
2011-05-20 13:33:29,801 - INFO - Processed 48800000 reads so far
2011-05-20 13:33:41,008 - INFO - Processed 48900000 reads so far
2011-05-20 13:33:52,156 - INFO - Processed 49000000 reads so far
2011-05-20 13:34:01,727 - INFO - Processed 49100000 reads so far
2011-05-20 13:34:12,796 - INFO - Processed 49200000 reads so far
2011-05-20 13:34:20,704 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17:42989984-63009984
2011-05-20 13:34:23,929 - INFO - Processed 49300000 reads so far
2011-05-20 13:34:34,954 - INFO - Processed 49400000 reads so far
2011-05-20 13:34:46,747 - INFO - Processed 49500000 reads so far
2011-05-20 13:34:55,910 - INFO - Processed 49600000 reads so far
2011-05-20 13:35:07,158 - INFO - Processed 49700000 reads so far
2011-05-20 13:35:16,887 - INFO - Processed 49800000 reads so far
2011-05-20 13:35:26,460 - INFO - Processed 49900000 reads so far
2011-05-20 13:35:36,428 - INFO - Processed 50000000 reads so far
2011-05-20 13:35:46,118 - INFO - Processed 50100000 reads so far
2011-05-20 13:35:56,605 - INFO - Processed 50200000 reads so far
2011-05-20 13:36:05,461 - INFO - Processed 50300000 reads so far
2011-05-20 13:36:15,653 - INFO - Processed 50400000 reads so far
2011-05-20 13:36:18,857 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17:62989991-83009991
2011-05-20 13:36:25,897 - INFO - Processed 50500000 reads so far
2011-05-20 13:36:36,915 - INFO - Processed 50600000 reads so far
2011-05-20 13:36:50,412 - INFO - Processed 50700000 reads so far
2011-05-20 13:37:00,554 - INFO - Processed 50800000 reads so far
2011-05-20 13:37:07,520 - INFO - Processed 50900000 reads so far
2011-05-20 13:37:16,646 - INFO - Processed 51000000 reads so far
2011-05-20 13:37:25,435 - INFO - Processed 51100000 reads so far
2011-05-20 13:37:36,316 - INFO - Processed 51200000 reads so far
2011-05-20 13:37:44,110 - INFO - Processed 51300000 reads so far
2011-05-20 13:37:52,084 - INFO - Processed 51400000 reads so far
2011-05-20 13:37:59,750 - INFO - Processed 51500000 reads so far
2011-05-20 13:38:11,369 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17:82990020-103010020
2011-05-20 13:38:11,798 - INFO - Processed 51600000 reads so far
2011-05-20 13:38:22,689 - INFO - Processed 51700000 reads so far
2011-05-20 13:38:33,747 - INFO - Processed 51800000 reads so far
2011-05-20 13:38:45,399 - INFO - Processed 51900000 reads so far
2011-05-20 13:38:58,097 - INFO - Processed 52000000 reads so far
2011-05-20 13:39:09,096 - INFO - Processed 52100000 reads so far
2011-05-20 13:39:19,327 - INFO - Processed 52200000 reads so far
2011-05-20 13:39:28,332 - INFO - Processed 52300000 reads so far
2011-05-20 13:39:28,403 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17_random:0-20010055
2011-05-20 13:39:30,388 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr18:2990000-23010000
2011-05-20 13:39:39,080 - INFO - Processed 52400000 reads so far
2011-05-20 13:39:47,918 - INFO - Processed 52500000 reads so far
2011-05-20 13:39:55,243 - INFO - Processed 52600000 reads so far
2011-05-20 13:40:05,389 - INFO - Processed 52700000 reads so far
2011-05-20 13:40:13,259 - INFO - Processed 52800000 reads so far
2011-05-20 13:40:23,077 - INFO - Processed 52900000 reads so far
2011-05-20 13:40:33,941 - INFO - Processed 53000000 reads so far
2011-05-20 13:40:46,184 - INFO - Processed 53100000 reads so far
2011-05-20 13:40:57,021 - INFO - Processed 53200000 reads so far
2011-05-20 13:41:09,057 - INFO - Processed 53300000 reads so far
2011-05-20 13:41:17,279 - INFO - Processed 53400000 reads so far
2011-05-20 13:41:25,573 - INFO - Processed 53500000 reads so far
2011-05-20 13:41:26,151 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr18:22990032-43010032
2011-05-20 13:41:33,959 - INFO - Processed 53600000 reads so far
2011-05-20 13:41:43,127 - INFO - Processed 53700000 reads so far
2011-05-20 13:41:51,681 - INFO - Processed 53800000 reads so far
2011-05-20 13:42:01,398 - INFO - Processed 53900000 reads so far
2011-05-20 13:42:13,697 - INFO - Processed 54000000 reads so far
2011-05-20 13:42:23,796 - INFO - Processed 54100000 reads so far
2011-05-20 13:42:33,838 - INFO - Processed 54200000 reads so far
2011-05-20 13:42:41,966 - INFO - Processed 54300000 reads so far
2011-05-20 13:42:49,377 - INFO - Processed 54400000 reads so far
2011-05-20 13:42:59,069 - INFO - Processed 54500000 reads so far
2011-05-20 13:43:06,877 - INFO - Processed 54600000 reads so far
2011-05-20 13:43:13,845 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr18:42990099-63010099
2011-05-20 13:43:16,732 - INFO - Processed 54700000 reads so far
2011-05-20 13:43:27,586 - INFO - Processed 54800000 reads so far
2011-05-20 13:43:38,657 - INFO - Processed 54900000 reads so far
2011-05-20 13:43:48,964 - INFO - Processed 55000000 reads so far
2011-05-20 13:43:59,539 - INFO - Processed 55100000 reads so far
2011-05-20 13:44:08,244 - INFO - Processed 55200000 reads so far
2011-05-20 13:44:16,481 - INFO - Processed 55300000 reads so far
2011-05-20 13:44:25,397 - INFO - Processed 55400000 reads so far
2011-05-20 13:44:37,004 - INFO - Processed 55500000 reads so far
2011-05-20 13:44:45,057 - INFO - Processed 55600000 reads so far
2011-05-20 13:44:54,678 - INFO - Processed 55700000 reads so far
2011-05-20 13:45:03,573 - INFO - Processed 55800000 reads so far
2011-05-20 13:45:05,838 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr18:62990102-83010102
2011-05-20 13:45:15,022 - INFO - Processed 55900000 reads so far
2011-05-20 13:45:24,784 - INFO - Processed 56000000 reads so far
2011-05-20 13:45:35,398 - INFO - Processed 56100000 reads so far
2011-05-20 13:45:47,201 - INFO - Processed 56200000 reads so far
2011-05-20 13:45:55,660 - INFO - Processed 56300000 reads so far
2011-05-20 13:46:05,154 - INFO - Processed 56400000 reads so far
2011-05-20 13:46:13,391 - INFO - Processed 56500000 reads so far
2011-05-20 13:46:21,938 - INFO - Processed 56600000 reads so far
2011-05-20 13:46:30,597 - INFO - Processed 56700000 reads so far
2011-05-20 13:46:37,253 - INFO - Processed 56800000 reads so far
2011-05-20 13:46:43,884 - INFO - Processed 56900000 reads so far
2011-05-20 13:46:52,180 - INFO - Processed 57000000 reads so far
2011-05-20 13:46:55,073 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr18:82990111-103010111
2011-05-20 13:47:00,916 - INFO - Processed 57100000 reads so far
2011-05-20 13:47:09,286 - INFO - Processed 57200000 reads so far
2011-05-20 13:47:15,983 - INFO - Processed 57300000 reads so far
2011-05-20 13:47:24,549 - INFO - Processed 57400000 reads so far
2011-05-20 13:47:31,533 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr19:2990067-23010067
2011-05-20 13:47:34,215 - INFO - Processed 57500000 reads so far
2011-05-20 13:47:41,041 - INFO - Processed 57600000 reads so far
2011-05-20 13:47:52,418 - INFO - Processed 57700000 reads so far
2011-05-20 13:48:03,919 - INFO - Processed 57800000 reads so far
2011-05-20 13:48:14,800 - INFO - Processed 57900000 reads so far
2011-05-20 13:48:26,074 - INFO - Processed 58000000 reads so far
2011-05-20 13:48:36,787 - INFO - Processed 58100000 reads so far
2011-05-20 13:48:47,154 - INFO - Processed 58200000 reads so far
2011-05-20 13:48:57,661 - INFO - Processed 58300000 reads so far
2011-05-20 13:49:07,185 - INFO - Processed 58400000 reads so far
2011-05-20 13:49:17,886 - INFO - Processed 58500000 reads so far
2011-05-20 13:49:28,778 - INFO - Processed 58600000 reads so far
2011-05-20 13:49:32,584 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr19:22990069-43010069
2011-05-20 13:49:39,496 - INFO - Processed 58700000 reads so far
2011-05-20 13:49:49,816 - INFO - Processed 58800000 reads so far
2011-05-20 13:50:01,167 - INFO - Processed 58900000 reads so far
2011-05-20 13:50:12,009 - INFO - Processed 59000000 reads so far
2011-05-20 13:50:22,630 - INFO - Processed 59100000 reads so far
2011-05-20 13:50:33,640 - INFO - Processed 59200000 reads so far
2011-05-20 13:50:43,506 - INFO - Processed 59300000 reads so far
2011-05-20 13:50:54,110 - INFO - Processed 59400000 reads so far
2011-05-20 13:51:02,284 - INFO - Processed 59500000 reads so far
2011-05-20 13:51:12,264 - INFO - Processed 59600000 reads so far
2011-05-20 13:51:23,227 - INFO - Processed 59700000 reads so far
2011-05-20 13:51:34,156 - INFO - Processed 59800000 reads so far
2011-05-20 13:51:34,505 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr19:42990102-63010102
2011-05-20 13:51:45,175 - INFO - Processed 59900000 reads so far
2011-05-20 13:51:56,277 - INFO - Processed 60000000 reads so far
2011-05-20 13:52:07,308 - INFO - Processed 60100000 reads so far
2011-05-20 13:52:18,002 - INFO - Processed 60200000 reads so far
2011-05-20 13:52:29,711 - INFO - Processed 60300000 reads so far
2011-05-20 13:52:40,660 - INFO - Processed 60400000 reads so far
2011-05-20 13:52:52,514 - INFO - Processed 60500000 reads so far
2011-05-20 13:53:04,683 - INFO - Processed 60600000 reads so far
2011-05-20 13:53:17,792 - INFO - Processed 60700000 reads so far
2011-05-20 13:53:30,295 - INFO - Processed 60800000 reads so far
2011-05-20 13:53:41,077 - INFO - Processed 60900000 reads so far
2011-05-20 13:53:43,305 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:2989991-23009991
2011-05-20 13:53:52,765 - INFO - Processed 61000000 reads so far
2011-05-20 13:54:03,734 - INFO - Processed 61100000 reads so far
2011-05-20 13:54:14,624 - INFO - Processed 61200000 reads so far
2011-05-20 13:54:25,275 - INFO - Processed 61300000 reads so far
2011-05-20 13:54:35,717 - INFO - Processed 61400000 reads so far
2011-05-20 13:54:46,447 - INFO - Processed 61500000 reads so far
2011-05-20 13:54:57,252 - INFO - Processed 61600000 reads so far
2011-05-20 13:55:08,489 - INFO - Processed 61700000 reads so far
2011-05-20 13:55:17,133 - INFO - Processed 61800000 reads so far
2011-05-20 13:55:25,115 - INFO - Processed 61900000 reads so far
2011-05-20 13:55:33,993 - INFO - Processed 62000000 reads so far
2011-05-20 13:55:37,612 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:22989996-43009996
2011-05-20 13:55:42,421 - INFO - Processed 62100000 reads so far
2011-05-20 13:55:50,750 - INFO - Processed 62200000 reads so far
2011-05-20 13:56:01,117 - INFO - Processed 62300000 reads so far
2011-05-20 13:56:12,565 - INFO - Processed 62400000 reads so far
2011-05-20 13:56:22,920 - INFO - Processed 62500000 reads so far
2011-05-20 13:56:35,409 - INFO - Processed 62600000 reads so far
2011-05-20 13:56:46,248 - INFO - Processed 62700000 reads so far
2011-05-20 13:56:56,679 - INFO - Processed 62800000 reads so far
2011-05-20 13:57:07,713 - INFO - Processed 62900000 reads so far
2011-05-20 13:57:18,722 - INFO - Processed 63000000 reads so far
2011-05-20 13:57:29,310 - INFO - Processed 63100000 reads so far
2011-05-20 13:57:38,785 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:42990005-63010005
2011-05-20 13:57:39,982 - INFO - Processed 63200000 reads so far
2011-05-20 13:57:49,743 - INFO - Processed 63300000 reads so far
2011-05-20 13:58:01,460 - INFO - Processed 63400000 reads so far
2011-05-20 13:58:12,383 - INFO - Processed 63500000 reads so far
2011-05-20 13:58:23,581 - INFO - Processed 63600000 reads so far
2011-05-20 13:58:35,254 - INFO - Processed 63700000 reads so far
2011-05-20 13:58:45,780 - INFO - Processed 63800000 reads so far
2011-05-20 13:58:56,660 - INFO - Processed 63900000 reads so far
2011-05-20 13:59:07,575 - INFO - Processed 64000000 reads so far
2011-05-20 13:59:18,906 - INFO - Processed 64100000 reads so far
2011-05-20 13:59:29,935 - INFO - Processed 64200000 reads so far
2011-05-20 13:59:40,756 - INFO - Processed 64300000 reads so far
2011-05-20 13:59:41,079 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:62990009-83010009
2011-05-20 13:59:51,592 - INFO - Processed 64400000 reads so far
2011-05-20 14:00:04,367 - INFO - Processed 64500000 reads so far
2011-05-20 14:00:15,355 - INFO - Processed 64600000 reads so far
2011-05-20 14:00:26,235 - INFO - Processed 64700000 reads so far
2011-05-20 14:00:37,150 - INFO - Processed 64800000 reads so far
2011-05-20 14:00:49,133 - INFO - Processed 64900000 reads so far
2011-05-20 14:01:00,407 - INFO - Processed 65000000 reads so far
2011-05-20 14:01:10,221 - INFO - Processed 65100000 reads so far
2011-05-20 14:01:21,118 - INFO - Processed 65200000 reads so far
2011-05-20 14:01:28,900 - INFO - Processed 65300000 reads so far
2011-05-20 14:01:37,220 - INFO - Processed 65400000 reads so far
2011-05-20 14:01:40,037 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:82990015-103010015
2011-05-20 14:01:45,439 - INFO - Processed 65500000 reads so far
2011-05-20 14:01:53,353 - INFO - Processed 65600000 reads so far
2011-05-20 14:02:00,928 - INFO - Processed 65700000 reads so far
2011-05-20 14:02:09,193 - INFO - Processed 65800000 reads so far
2011-05-20 14:02:18,196 - INFO - Processed 65900000 reads so far
2011-05-20 14:02:25,718 - INFO - Processed 66000000 reads so far
2011-05-20 14:02:33,698 - INFO - Processed 66100000 reads so far
2011-05-20 14:02:40,642 - INFO - Processed 66200000 reads so far
2011-05-20 14:02:48,712 - INFO - Processed 66300000 reads so far
2011-05-20 14:02:56,648 - INFO - Processed 66400000 reads so far
2011-05-20 14:03:04,813 - INFO - Processed 66500000 reads so far
2011-05-20 14:03:13,301 - INFO - Processed 66600000 reads so far
2011-05-20 14:03:19,583 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:102990038-123010038
2011-05-20 14:03:22,505 - INFO - Processed 66700000 reads so far
2011-05-20 14:03:31,665 - INFO - Processed 66800000 reads so far
2011-05-20 14:03:39,539 - INFO - Processed 66900000 reads so far
2011-05-20 14:03:47,483 - INFO - Processed 67000000 reads so far
2011-05-20 14:03:55,131 - INFO - Processed 67100000 reads so far
2011-05-20 14:04:03,423 - INFO - Processed 67200000 reads so far
2011-05-20 14:04:15,729 - INFO - Processed 67300000 reads so far
2011-05-20 14:04:26,597 - INFO - Processed 67400000 reads so far
2011-05-20 14:04:37,417 - INFO - Processed 67500000 reads so far
2011-05-20 14:04:48,117 - INFO - Processed 67600000 reads so far
2011-05-20 14:04:58,785 - INFO - Processed 67700000 reads so far
2011-05-20 14:05:06,842 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:122990041-143010041
2011-05-20 14:05:09,574 - INFO - Processed 67800000 reads so far
2011-05-20 14:05:20,199 - INFO - Processed 67900000 reads so far
2011-05-20 14:05:31,523 - INFO - Processed 68000000 reads so far
2011-05-20 14:05:42,313 - INFO - Processed 68100000 reads so far
2011-05-20 14:05:51,634 - INFO - Processed 68200000 reads so far
2011-05-20 14:05:59,941 - INFO - Processed 68300000 reads so far
2011-05-20 14:06:08,747 - INFO - Processed 68400000 reads so far
2011-05-20 14:06:18,916 - INFO - Processed 68500000 reads so far
2011-05-20 14:06:29,320 - INFO - Processed 68600000 reads so far
2011-05-20 14:06:37,720 - INFO - Processed 68700000 reads so far
2011-05-20 14:06:46,491 - INFO - Processed 68800000 reads so far
2011-05-20 14:06:54,863 - INFO - Processed 68900000 reads so far
2011-05-20 14:06:59,763 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:142990042-163010042
2011-05-20 14:07:02,923 - INFO - Processed 69000000 reads so far
2011-05-20 14:07:11,321 - INFO - Processed 69100000 reads so far
2011-05-20 14:07:19,515 - INFO - Processed 69200000 reads so far
2011-05-20 14:07:27,911 - INFO - Processed 69300000 reads so far
2011-05-20 14:07:36,019 - INFO - Processed 69400000 reads so far
2011-05-20 14:07:44,116 - INFO - Processed 69500000 reads so far
2011-05-20 14:07:53,668 - INFO - Processed 69600000 reads so far
2011-05-20 14:08:01,877 - INFO - Processed 69700000 reads so far
2011-05-20 14:08:11,151 - INFO - Processed 69800000 reads so far
2011-05-20 14:08:21,349 - INFO - Processed 69900000 reads so far
2011-05-20 14:08:29,676 - INFO - Processed 70000000 reads so far
2011-05-20 14:08:33,940 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:162990047-183010047
2011-05-20 14:08:37,716 - INFO - Processed 70100000 reads so far
2011-05-20 14:08:45,684 - INFO - Processed 70200000 reads so far
2011-05-20 14:08:55,874 - INFO - Processed 70300000 reads so far
2011-05-20 14:09:06,229 - INFO - Processed 70400000 reads so far
2011-05-20 14:09:14,190 - INFO - Processed 70500000 reads so far
2011-05-20 14:09:22,870 - INFO - Processed 70600000 reads so far
2011-05-20 14:09:31,518 - INFO - Processed 70700000 reads so far
2011-05-20 14:09:39,774 - INFO - Processed 70800000 reads so far
2011-05-20 14:09:48,119 - INFO - Processed 70900000 reads so far
2011-05-20 14:09:56,086 - INFO - Processed 71000000 reads so far
2011-05-20 14:10:04,584 - INFO - Processed 71100000 reads so far
2011-05-20 14:10:13,139 - INFO - Processed 71200000 reads so far
2011-05-20 14:10:17,410 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:182990086-203010086
2011-05-20 14:10:21,745 - INFO - Processed 71300000 reads so far
2011-05-20 14:10:29,664 - INFO - Processed 71400000 reads so far
2011-05-20 14:10:37,434 - INFO - Processed 71500000 reads so far
2011-05-20 14:10:45,472 - INFO - Processed 71600000 reads so far
2011-05-20 14:10:53,929 - INFO - Processed 71700000 reads so far
2011-05-20 14:11:02,085 - INFO - Processed 71800000 reads so far
2011-05-20 14:11:10,850 - INFO - Processed 71900000 reads so far
2011-05-20 14:11:20,086 - INFO - Processed 72000000 reads so far
2011-05-20 14:11:28,418 - INFO - Processed 72100000 reads so far
2011-05-20 14:11:30,006 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1_random:0-20010000
2011-05-20 14:11:37,120 - INFO - Processed 72200000 reads so far
2011-05-20 14:11:43,039 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:2990024-23010024
2011-05-20 14:11:44,331 - INFO - Processed 72300000 reads so far
2011-05-20 14:11:52,549 - INFO - Processed 72400000 reads so far
2011-05-20 14:12:01,878 - INFO - Processed 72500000 reads so far
2011-05-20 14:12:10,232 - INFO - Processed 72600000 reads so far
2011-05-20 14:12:19,319 - INFO - Processed 72700000 reads so far
2011-05-20 14:12:29,540 - INFO - Processed 72800000 reads so far
2011-05-20 14:12:38,886 - INFO - Processed 72900000 reads so far
2011-05-20 14:12:47,322 - INFO - Processed 73000000 reads so far
2011-05-20 14:12:57,300 - INFO - Processed 73100000 reads so far
2011-05-20 14:13:05,974 - INFO - Processed 73200000 reads so far
2011-05-20 14:13:14,648 - INFO - Processed 73300000 reads so far
2011-05-20 14:13:23,210 - INFO - Processed 73400000 reads so far
2011-05-20 14:13:29,453 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:22990042-43010042
2011-05-20 14:13:34,580 - INFO - Processed 73500000 reads so far
2011-05-20 14:13:46,928 - INFO - Processed 73600000 reads so far
2011-05-20 14:13:55,739 - INFO - Processed 73700000 reads so far
2011-05-20 14:14:03,525 - INFO - Processed 73800000 reads so far
2011-05-20 14:14:12,370 - INFO - Processed 73900000 reads so far
2011-05-20 14:14:23,626 - INFO - Processed 74000000 reads so far
2011-05-20 14:14:34,157 - INFO - Processed 74100000 reads so far
2011-05-20 14:14:43,799 - INFO - Processed 74200000 reads so far
2011-05-20 14:14:54,095 - INFO - Processed 74300000 reads so far
2011-05-20 14:15:04,573 - INFO - Processed 74400000 reads so far
2011-05-20 14:15:13,742 - INFO - Processed 74500000 reads so far
2011-05-20 14:15:22,262 - INFO - Processed 74600000 reads so far
2011-05-20 14:15:31,484 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:42990070-63010070
2011-05-20 14:15:31,755 - INFO - Processed 74700000 reads so far
2011-05-20 14:15:40,503 - INFO - Processed 74800000 reads so far
2011-05-20 14:15:48,984 - INFO - Processed 74900000 reads so far
2011-05-20 14:15:56,883 - INFO - Processed 75000000 reads so far
2011-05-20 14:16:06,240 - INFO - Processed 75100000 reads so far
2011-05-20 14:16:16,485 - INFO - Processed 75200000 reads so far
2011-05-20 14:16:26,924 - INFO - Processed 75300000 reads so far
2011-05-20 14:16:36,143 - INFO - Processed 75400000 reads so far
2011-05-20 14:16:46,028 - INFO - Processed 75500000 reads so far
2011-05-20 14:16:54,743 - INFO - Processed 75600000 reads so far
2011-05-20 14:17:03,901 - INFO - Processed 75700000 reads so far
2011-05-20 14:17:11,842 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:62990080-83010080
2011-05-20 14:17:12,721 - INFO - Processed 75800000 reads so far
2011-05-20 14:17:22,140 - INFO - Processed 75900000 reads so far
2011-05-20 14:17:32,070 - INFO - Processed 76000000 reads so far
2011-05-20 14:17:42,664 - INFO - Processed 76100000 reads so far
2011-05-20 14:17:51,398 - INFO - Processed 76200000 reads so far
2011-05-20 14:18:01,563 - INFO - Processed 76300000 reads so far
2011-05-20 14:18:10,191 - INFO - Processed 76400000 reads so far
2011-05-20 14:18:19,780 - INFO - Processed 76500000 reads so far
2011-05-20 14:18:30,873 - INFO - Processed 76600000 reads so far
2011-05-20 14:18:39,552 - INFO - Processed 76700000 reads so far
2011-05-20 14:18:48,310 - INFO - Processed 76800000 reads so far
2011-05-20 14:18:57,030 - INFO - Processed 76900000 reads so far
2011-05-20 14:18:57,365 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:82990083-103010083
2011-05-20 14:19:06,562 - INFO - Processed 77000000 reads so far
2011-05-20 14:19:15,481 - INFO - Processed 77100000 reads so far
2011-05-20 14:19:24,312 - INFO - Processed 77200000 reads so far
2011-05-20 14:19:32,887 - INFO - Processed 77300000 reads so far
2011-05-20 14:19:41,947 - INFO - Processed 77400000 reads so far
2011-05-20 14:19:50,454 - INFO - Processed 77500000 reads so far
2011-05-20 14:19:59,245 - INFO - Processed 77600000 reads so far
2011-05-20 14:20:08,772 - INFO - Processed 77700000 reads so far
2011-05-20 14:20:16,455 - INFO - Processed 77800000 reads so far
2011-05-20 14:20:22,947 - INFO - Processed 77900000 reads so far
2011-05-20 14:20:29,640 - INFO - Processed 78000000 reads so far
2011-05-20 14:20:35,618 - INFO - Processed 78100000 reads so far
2011-05-20 14:20:42,400 - INFO - Processed 78200000 reads so far
2011-05-20 14:20:50,609 - INFO - Processed 78300000 reads so far
2011-05-20 14:20:58,380 - INFO - Processed 78400000 reads so far
2011-05-20 14:21:04,900 - INFO - Processed 78500000 reads so far
2011-05-20 14:21:11,475 - INFO - Processed 78600000 reads so far
2011-05-20 14:21:18,773 - INFO - Processed 78700000 reads so far
2011-05-20 14:21:26,125 - INFO - Processed 78800000 reads so far
2011-05-20 14:21:32,984 - INFO - Processed 78900000 reads so far
2011-05-20 14:21:40,395 - INFO - Processed 79000000 reads so far
2011-05-20 14:21:46,565 - INFO - Processed 79100000 reads so far
2011-05-20 14:21:55,147 - INFO - Processed 79200000 reads so far
2011-05-20 14:22:03,400 - INFO - Processed 79300000 reads so far
2011-05-20 14:22:10,008 - INFO - Processed 79400000 reads so far
2011-05-20 14:22:17,091 - INFO - Processed 79500000 reads so far
2011-05-20 14:22:24,301 - INFO - Processed 79600000 reads so far
2011-05-20 14:22:31,443 - INFO - Processed 79700000 reads so far
2011-05-20 14:22:38,320 - INFO - Processed 79800000 reads so far
2011-05-20 14:22:44,963 - INFO - Processed 79900000 reads so far
2011-05-20 14:22:51,987 - INFO - Processed 80000000 reads so far
2011-05-20 14:22:58,880 - INFO - Processed 80100000 reads so far
2011-05-20 14:23:05,805 - INFO - Processed 80200000 reads so far
2011-05-20 14:23:12,519 - INFO - Processed 80300000 reads so far
2011-05-20 14:23:21,166 - INFO - Processed 80400000 reads so far
2011-05-20 14:23:27,971 - INFO - Processed 80500000 reads so far
2011-05-20 14:23:34,491 - INFO - Processed 80600000 reads so far
2011-05-20 14:23:41,888 - INFO - Processed 80700000 reads so far
2011-05-20 14:23:48,712 - INFO - Processed 80800000 reads so far
2011-05-20 14:23:55,966 - INFO - Processed 80900000 reads so far
2011-05-20 14:24:01,704 - INFO - Processed 81000000 reads so far
2011-05-20 14:24:07,760 - INFO - Processed 81100000 reads so far
2011-05-20 14:24:13,994 - INFO - Processed 81200000 reads so far
2011-05-20 14:24:20,314 - INFO - Processed 81300000 reads so far
2011-05-20 14:24:27,574 - INFO - Processed 81400000 reads so far
2011-05-20 14:24:35,401 - INFO - Processed 81500000 reads so far
2011-05-20 14:24:41,988 - INFO - Processed 81600000 reads so far
2011-05-20 14:24:48,331 - INFO - Processed 81700000 reads so far
2011-05-20 14:24:54,749 - INFO - Processed 81800000 reads so far
2011-05-20 14:25:02,514 - INFO - Processed 81900000 reads so far
2011-05-20 14:25:09,802 - INFO - Processed 82000000 reads so far
2011-05-20 14:25:16,717 - INFO - Processed 82100000 reads so far
2011-05-20 14:25:23,670 - INFO - Processed 82200000 reads so far
2011-05-20 14:25:30,326 - INFO - Processed 82300000 reads so far
2011-05-20 14:25:38,958 - INFO - Processed 82400000 reads so far
2011-05-20 14:25:49,753 - INFO - Processed 82500000 reads so far
2011-05-20 14:25:56,205 - INFO - Processed 82600000 reads so far
2011-05-20 14:26:02,654 - INFO - Processed 82700000 reads so far
2011-05-20 14:26:09,275 - INFO - Processed 82800000 reads so far
2011-05-20 14:26:15,624 - INFO - Processed 82900000 reads so far
2011-05-20 14:26:24,348 - INFO - Processed 83000000 reads so far
2011-05-20 14:26:30,803 - INFO - Processed 83100000 reads so far
2011-05-20 14:26:37,671 - INFO - Processed 83200000 reads so far
2011-05-20 14:26:44,386 - INFO - Processed 83300000 reads so far
2011-05-20 14:26:50,988 - INFO - Processed 83400000 reads so far
2011-05-20 14:26:57,403 - INFO - Processed 83500000 reads so far
2011-05-20 14:27:03,832 - INFO - Processed 83600000 reads so far
2011-05-20 14:27:11,218 - INFO - Processed 83700000 reads so far
2011-05-20 14:27:17,725 - INFO - Processed 83800000 reads so far
2011-05-20 14:27:24,122 - INFO - Processed 83900000 reads so far
2011-05-20 14:27:33,959 - INFO - Processed 84000000 reads so far
2011-05-20 14:27:42,998 - INFO - Processed 84100000 reads so far
2011-05-20 14:27:51,933 - INFO - Processed 84200000 reads so far
2011-05-20 14:28:00,649 - INFO - Processed 84300000 reads so far
2011-05-20 14:28:09,378 - INFO - Processed 84400000 reads so far
2011-05-20 14:28:15,194 - INFO - Processed 84500000 reads so far
2011-05-20 14:28:20,694 - INFO - Processed 84600000 reads so far
2011-05-20 14:28:27,877 - INFO - Processed 84700000 reads so far
2011-05-20 14:28:34,538 - INFO - Processed 84800000 reads so far
2011-05-20 14:28:40,112 - INFO - Processed 84900000 reads so far
2011-05-20 14:28:45,799 - INFO - Processed 85000000 reads so far
2011-05-20 14:28:51,714 - INFO - Processed 85100000 reads so far
2011-05-20 14:28:57,284 - INFO - Processed 85200000 reads so far
2011-05-20 14:29:03,796 - INFO - Processed 85300000 reads so far
2011-05-20 14:29:12,592 - INFO - Processed 85400000 reads so far
2011-05-20 14:29:21,228 - INFO - Processed 85500000 reads so far
2011-05-20 14:29:29,874 - INFO - Processed 85600000 reads so far
2011-05-20 14:29:38,574 - INFO - Processed 85700000 reads so far
2011-05-20 14:29:47,186 - INFO - Processed 85800000 reads so far
2011-05-20 14:29:56,947 - INFO - Processed 85900000 reads so far
2011-05-20 14:30:06,094 - INFO - Processed 86000000 reads so far
2011-05-20 14:30:14,827 - INFO - Processed 86100000 reads so far
2011-05-20 14:30:23,642 - INFO - Processed 86200000 reads so far
2011-05-20 14:30:30,658 - INFO - Processed 86300000 reads so far
2011-05-20 14:30:37,680 - INFO - Processed 86400000 reads so far
2011-05-20 14:30:45,326 - INFO - Processed 86500000 reads so far
2011-05-20 14:30:53,892 - INFO - Processed 86600000 reads so far
2011-05-20 14:31:06,959 - INFO - Processed 86700000 reads so far
2011-05-20 14:31:34,545 - INFO - Processed 86800000 reads so far
2011-05-20 14:31:43,564 - INFO - Processed 86900000 reads so far
2011-05-20 14:31:50,094 - INFO - Processed 87000000 reads so far
2011-05-20 14:31:57,382 - INFO - Processed 87100000 reads so far
2011-05-20 14:32:05,255 - INFO - Processed 87200000 reads so far
2011-05-20 14:32:12,615 - INFO - Processed 87300000 reads so far
2011-05-20 14:32:19,340 - INFO - Processed 87400000 reads so far
2011-05-20 14:32:26,810 - INFO - Processed 87500000 reads so far
2011-05-20 14:32:33,598 - INFO - Processed 87600000 reads so far
2011-05-20 14:32:40,638 - INFO - Processed 87700000 reads so far
2011-05-20 14:32:50,550 - INFO - Processed 87800000 reads so far
2011-05-20 14:32:58,200 - INFO - Processed 87900000 reads so far
2011-05-20 14:33:07,273 - INFO - Processed 88000000 reads so far
2011-05-20 14:33:17,057 - INFO - Processed 88100000 reads so far
2011-05-20 14:33:26,440 - INFO - Processed 88200000 reads so far
2011-05-20 14:33:35,846 - INFO - Processed 88300000 reads so far
2011-05-20 14:33:45,897 - INFO - Processed 88400000 reads so far
2011-05-20 14:33:55,022 - INFO - Processed 88500000 reads so far
2011-05-20 14:34:05,075 - INFO - Processed 88600000 reads so far
2011-05-20 14:34:14,548 - INFO - Processed 88700000 reads so far
2011-05-20 14:34:24,007 - INFO - Processed 88800000 reads so far
2011-05-20 14:34:33,645 - INFO - Processed 88900000 reads so far
2011-05-20 14:34:42,848 - INFO - Processed 89000000 reads so far
2011-05-20 14:34:50,764 - INFO - Processed 89100000 reads so far
2011-05-20 14:34:58,542 - INFO - Processed 89200000 reads so far
2011-05-20 14:35:08,969 - INFO - Processed 89300000 reads so far
2011-05-20 14:35:16,584 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:102990095-123010095
2011-05-20 14:35:18,154 - INFO - Processed 89400000 reads so far
2011-05-20 14:35:28,478 - INFO - Processed 89500000 reads so far
2011-05-20 14:35:38,021 - INFO - Processed 89600000 reads so far
2011-05-20 14:35:47,151 - INFO - Processed 89700000 reads so far
2011-05-20 14:35:57,872 - INFO - Processed 89800000 reads so far
2011-05-20 14:36:05,997 - INFO - Processed 89900000 reads so far
2011-05-20 14:36:14,852 - INFO - Processed 90000000 reads so far
2011-05-20 14:36:25,267 - INFO - Processed 90100000 reads so far
2011-05-20 14:36:35,007 - INFO - Processed 90200000 reads so far
2011-05-20 14:36:46,153 - INFO - Processed 90300000 reads so far
2011-05-20 14:36:54,884 - INFO - Processed 90400000 reads so far
2011-05-20 14:37:03,059 - INFO - Processed 90500000 reads so far
2011-05-20 14:37:04,899 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:122990142-143010142
2011-05-20 14:37:10,663 - INFO - Processed 90600000 reads so far
2011-05-20 14:37:18,582 - INFO - Processed 90700000 reads so far
2011-05-20 14:37:27,979 - INFO - Processed 90800000 reads so far
2011-05-20 14:37:39,499 - INFO - Processed 90900000 reads so far
2011-05-20 14:37:49,791 - INFO - Processed 91000000 reads so far
2011-05-20 14:38:00,982 - INFO - Processed 91100000 reads so far
2011-05-20 14:38:13,294 - INFO - Processed 91200000 reads so far
2011-05-20 14:38:23,799 - INFO - Processed 91300000 reads so far
2011-05-20 14:38:35,309 - INFO - Processed 91400000 reads so far
2011-05-20 14:38:43,455 - INFO - Processed 91500000 reads so far
2011-05-20 14:38:54,742 - INFO - Processed 91600000 reads so far
2011-05-20 14:39:03,969 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:142990167-163010167
2011-05-20 14:39:05,328 - INFO - Processed 91700000 reads so far
2011-05-20 14:39:15,691 - INFO - Processed 91800000 reads so far
2011-05-20 14:39:26,309 - INFO - Processed 91900000 reads so far
2011-05-20 14:39:36,718 - INFO - Processed 92000000 reads so far
2011-05-20 14:39:48,543 - INFO - Processed 92100000 reads so far
2011-05-20 14:39:58,872 - INFO - Processed 92200000 reads so far
2011-05-20 14:40:09,576 - INFO - Processed 92300000 reads so far
2011-05-20 14:40:20,016 - INFO - Processed 92400000 reads so far
2011-05-20 14:40:28,338 - INFO - Processed 92500000 reads so far
2011-05-20 14:40:38,205 - INFO - Processed 92600000 reads so far
2011-05-20 14:40:46,223 - INFO - Processed 92700000 reads so far
2011-05-20 14:40:56,510 - INFO - Processed 92800000 reads so far
2011-05-20 14:41:07,718 - INFO - Processed 92900000 reads so far
2011-05-20 14:41:09,305 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:162990187-183010187
2011-05-20 14:41:15,186 - INFO - Processed 93000000 reads so far
2011-05-20 14:41:26,418 - INFO - Processed 93100000 reads so far
2011-05-20 14:41:35,092 - INFO - Processed 93200000 reads so far
2011-05-20 14:41:45,016 - INFO - Processed 93300000 reads so far
2011-05-20 14:41:53,743 - INFO - Processed 93400000 reads so far
2011-05-20 14:42:04,800 - INFO - Processed 93500000 reads so far
2011-05-20 14:42:15,709 - INFO - Processed 93600000 reads so far
2011-05-20 14:42:25,361 - INFO - Processed 93700000 reads so far
2011-05-20 14:42:32,681 - INFO - Processed 93800000 reads so far
2011-05-20 14:42:40,804 - INFO - Processed 93900000 reads so far
2011-05-20 14:42:47,560 - INFO - Processed 94000000 reads so far
2011-05-20 14:42:56,831 - INFO - Processed 94100000 reads so far
2011-05-20 14:43:04,175 - INFO - Processed 94200000 reads so far
2011-05-20 14:43:06,478 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:2989994-23009994
2011-05-20 14:43:11,674 - INFO - Processed 94300000 reads so far
2011-05-20 14:43:19,579 - INFO - Processed 94400000 reads so far
2011-05-20 14:43:27,027 - INFO - Processed 94500000 reads so far
2011-05-20 14:43:34,941 - INFO - Processed 94600000 reads so far
2011-05-20 14:43:42,810 - INFO - Processed 94700000 reads so far
2011-05-20 14:43:50,821 - INFO - Processed 94800000 reads so far
2011-05-20 14:44:00,056 - INFO - Processed 94900000 reads so far
2011-05-20 14:44:10,564 - INFO - Processed 95000000 reads so far
2011-05-20 14:44:20,263 - INFO - Processed 95100000 reads so far
2011-05-20 14:44:26,953 - INFO - Processed 95200000 reads so far
2011-05-20 14:44:36,127 - INFO - Processed 95300000 reads so far
2011-05-20 14:44:40,156 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:22990042-43010042
2011-05-20 14:44:46,870 - INFO - Processed 95400000 reads so far
2011-05-20 14:44:57,272 - INFO - Processed 95500000 reads so far
2011-05-20 14:45:09,359 - INFO - Processed 95600000 reads so far
2011-05-20 14:45:22,410 - INFO - Processed 95700000 reads so far
2011-05-20 14:45:34,770 - INFO - Processed 95800000 reads so far
2011-05-20 14:45:45,303 - INFO - Processed 95900000 reads so far
2011-05-20 14:45:55,498 - INFO - Processed 96000000 reads so far
2011-05-20 14:46:06,807 - INFO - Processed 96100000 reads so far
2011-05-20 14:46:19,416 - INFO - Processed 96200000 reads so far
2011-05-20 14:46:30,516 - INFO - Processed 96300000 reads so far
2011-05-20 14:46:38,507 - INFO - Processed 96400000 reads so far
2011-05-20 14:46:53,335 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:42990055-63010055
2011-05-20 14:46:54,551 - INFO - Processed 96500000 reads so far
2011-05-20 14:47:03,089 - INFO - Processed 96600000 reads so far
2011-05-20 14:47:10,839 - INFO - Processed 96700000 reads so far
2011-05-20 14:47:20,233 - INFO - Processed 96800000 reads so far
2011-05-20 14:47:29,295 - INFO - Processed 96900000 reads so far
2011-05-20 14:47:39,252 - INFO - Processed 97000000 reads so far
2011-05-20 14:47:47,423 - INFO - Processed 97100000 reads so far
2011-05-20 14:47:55,413 - INFO - Processed 97200000 reads so far
2011-05-20 14:48:04,069 - INFO - Processed 97300000 reads so far
2011-05-20 14:48:12,762 - INFO - Processed 97400000 reads so far
2011-05-20 14:48:20,222 - INFO - Processed 97500000 reads so far
2011-05-20 14:48:26,497 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:62990140-83010140
2011-05-20 14:48:28,932 - INFO - Processed 97600000 reads so far
2011-05-20 14:48:38,460 - INFO - Processed 97700000 reads so far
2011-05-20 14:48:46,799 - INFO - Processed 97800000 reads so far
2011-05-20 14:48:54,632 - INFO - Processed 97900000 reads so far
2011-05-20 14:49:03,540 - INFO - Processed 98000000 reads so far
2011-05-20 14:49:12,800 - INFO - Processed 98100000 reads so far
2011-05-20 14:49:21,371 - INFO - Processed 98200000 reads so far
2011-05-20 14:49:28,933 - INFO - Processed 98300000 reads so far
2011-05-20 14:49:35,963 - INFO - Processed 98400000 reads so far
2011-05-20 14:49:44,579 - INFO - Processed 98500000 reads so far
2011-05-20 14:49:52,974 - INFO - Processed 98600000 reads so far
2011-05-20 14:49:57,186 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:82990158-103010158
2011-05-20 14:50:03,228 - INFO - Processed 98700000 reads so far
2011-05-20 14:50:11,801 - INFO - Processed 98800000 reads so far
2011-05-20 14:50:24,043 - INFO - Processed 98900000 reads so far
2011-05-20 14:50:34,084 - INFO - Processed 99000000 reads so far
2011-05-20 14:50:47,547 - INFO - Processed 99100000 reads so far
2011-05-20 14:50:58,955 - INFO - Processed 99200000 reads so far
2011-05-20 14:51:13,615 - INFO - Processed 99300000 reads so far
2011-05-20 14:51:27,126 - INFO - Processed 99400000 reads so far
2011-05-20 14:51:42,041 - INFO - Processed 99500000 reads so far
2011-05-20 14:51:54,909 - INFO - Processed 99600000 reads so far
2011-05-20 14:52:04,853 - INFO - Processed 99700000 reads so far
2011-05-20 14:52:12,909 - INFO - Processed 99800000 reads so far
2011-05-20 14:52:20,184 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:102990198-123010198
2011-05-20 14:52:23,943 - INFO - Processed 99900000 reads so far
2011-05-20 14:52:34,905 - INFO - Processed 100000000 reads so far
2011-05-20 14:52:46,053 - INFO - Processed 100100000 reads so far
2011-05-20 14:52:53,438 - INFO - Processed 100200000 reads so far
2011-05-20 14:53:00,821 - INFO - Processed 100300000 reads so far
2011-05-20 14:53:07,963 - INFO - Processed 100400000 reads so far
2011-05-20 14:53:15,570 - INFO - Processed 100500000 reads so far
2011-05-20 14:53:23,772 - INFO - Processed 100600000 reads so far
2011-05-20 14:53:34,847 - INFO - Processed 100700000 reads so far
2011-05-20 14:53:45,830 - INFO - Processed 100800000 reads so far
2011-05-20 14:53:58,274 - INFO - Processed 100900000 reads so far
2011-05-20 14:54:08,833 - INFO - Processed 101000000 reads so far
2011-05-20 14:54:09,306 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:122990215-143010215
2011-05-20 14:54:20,028 - INFO - Processed 101100000 reads so far
2011-05-20 14:54:32,951 - INFO - Processed 101200000 reads so far
2011-05-20 14:54:43,937 - INFO - Processed 101300000 reads so far
2011-05-20 14:54:54,528 - INFO - Processed 101400000 reads so far
2011-05-20 14:55:04,736 - INFO - Processed 101500000 reads so far
2011-05-20 14:55:15,406 - INFO - Processed 101600000 reads so far
2011-05-20 14:55:22,803 - INFO - Processed 101700000 reads so far
2011-05-20 14:55:31,293 - INFO - Processed 101800000 reads so far
2011-05-20 14:55:39,810 - INFO - Processed 101900000 reads so far
2011-05-20 14:55:47,774 - INFO - Processed 102000000 reads so far
2011-05-20 14:55:57,984 - INFO - Processed 102100000 reads so far
2011-05-20 14:56:00,441 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:142990219-163010219
2011-05-20 14:56:08,607 - INFO - Processed 102200000 reads so far
2011-05-20 14:56:19,319 - INFO - Processed 102300000 reads so far
2011-05-20 14:56:29,945 - INFO - Processed 102400000 reads so far
2011-05-20 14:56:38,648 - INFO - Processed 102500000 reads so far
2011-05-20 14:56:49,546 - INFO - Processed 102600000 reads so far
2011-05-20 14:57:00,689 - INFO - Processed 102700000 reads so far
2011-05-20 14:57:12,120 - INFO - Processed 102800000 reads so far
2011-05-20 14:57:21,865 - INFO - Processed 102900000 reads so far
2011-05-20 14:57:32,987 - INFO - Processed 103000000 reads so far
2011-05-20 14:57:43,547 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3_random:0-20010564
2011-05-20 14:57:43,699 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:2990000-23010000
2011-05-20 14:57:44,029 - INFO - Processed 103100000 reads so far
2011-05-20 14:57:56,518 - INFO - Processed 103200000 reads so far
2011-05-20 14:58:08,090 - INFO - Processed 103300000 reads so far
2011-05-20 14:58:17,826 - INFO - Processed 103400000 reads so far
2011-05-20 14:58:27,584 - INFO - Processed 103500000 reads so far
2011-05-20 14:58:39,058 - INFO - Processed 103600000 reads so far
2011-05-20 14:58:50,116 - INFO - Processed 103700000 reads so far
2011-05-20 14:59:02,768 - INFO - Processed 103800000 reads so far
2011-05-20 14:59:13,984 - INFO - Processed 103900000 reads so far
2011-05-20 14:59:23,598 - INFO - Processed 104000000 reads so far
2011-05-20 14:59:34,878 - INFO - Processed 104100000 reads so far
2011-05-20 14:59:44,666 - INFO - Processed 104200000 reads so far
2011-05-20 14:59:50,253 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:22990008-43010008
2011-05-20 14:59:55,543 - INFO - Processed 104300000 reads so far
2011-05-20 15:00:06,905 - INFO - Processed 104400000 reads so far
2011-05-20 15:00:18,120 - INFO - Processed 104500000 reads so far
2011-05-20 15:00:29,279 - INFO - Processed 104600000 reads so far
2011-05-20 15:00:39,987 - INFO - Processed 104700000 reads so far
2011-05-20 15:00:53,921 - INFO - Processed 104800000 reads so far
2011-05-20 15:01:05,438 - INFO - Processed 104900000 reads so far
2011-05-20 15:01:16,626 - INFO - Processed 105000000 reads so far
2011-05-20 15:01:28,010 - INFO - Processed 105100000 reads so far
2011-05-20 15:01:37,619 - INFO - Processed 105200000 reads so far
2011-05-20 15:01:46,228 - INFO - Processed 105300000 reads so far
2011-05-20 15:01:48,490 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:42990019-63010019
2011-05-20 15:01:57,010 - INFO - Processed 105400000 reads so far
2011-05-20 15:02:05,262 - INFO - Processed 105500000 reads so far
2011-05-20 15:02:15,410 - INFO - Processed 105600000 reads so far
2011-05-20 15:02:28,529 - INFO - Processed 105700000 reads so far
2011-05-20 15:02:38,984 - INFO - Processed 105800000 reads so far
2011-05-20 15:02:50,346 - INFO - Processed 105900000 reads so far
2011-05-20 15:03:00,556 - INFO - Processed 106000000 reads so far
2011-05-20 15:03:09,243 - INFO - Processed 106100000 reads so far
2011-05-20 15:03:18,157 - INFO - Processed 106200000 reads so far
2011-05-20 15:03:28,644 - INFO - Processed 106300000 reads so far
2011-05-20 15:03:39,399 - INFO - Processed 106400000 reads so far
2011-05-20 15:03:48,050 - INFO - Processed 106500000 reads so far
2011-05-20 15:03:48,320 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:62990034-83010034
2011-05-20 15:03:56,424 - INFO - Processed 106600000 reads so far
2011-05-20 15:04:04,985 - INFO - Processed 106700000 reads so far
2011-05-20 15:04:13,451 - INFO - Processed 106800000 reads so far
2011-05-20 15:04:23,481 - INFO - Processed 106900000 reads so far
2011-05-20 15:04:33,890 - INFO - Processed 107000000 reads so far
2011-05-20 15:04:45,008 - INFO - Processed 107100000 reads so far
2011-05-20 15:04:55,900 - INFO - Processed 107200000 reads so far
2011-05-20 15:05:06,692 - INFO - Processed 107300000 reads so far
2011-05-20 15:05:16,441 - INFO - Processed 107400000 reads so far
2011-05-20 15:05:25,661 - INFO - Processed 107500000 reads so far
2011-05-20 15:05:34,655 - INFO - Processed 107600000 reads so far
2011-05-20 15:05:35,167 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:82990036-103010036
2011-05-20 15:05:45,573 - INFO - Processed 107700000 reads so far
2011-05-20 15:05:55,307 - INFO - Processed 107800000 reads so far
2011-05-20 15:06:04,675 - INFO - Processed 107900000 reads so far
2011-05-20 15:06:16,283 - INFO - Processed 108000000 reads so far
2011-05-20 15:06:25,384 - INFO - Processed 108100000 reads so far
2011-05-20 15:06:34,277 - INFO - Processed 108200000 reads so far
2011-05-20 15:06:42,754 - INFO - Processed 108300000 reads so far
2011-05-20 15:06:54,806 - INFO - Processed 108400000 reads so far
2011-05-20 15:07:04,288 - INFO - Processed 108500000 reads so far
2011-05-20 15:07:13,619 - INFO - Processed 108600000 reads so far
2011-05-20 15:07:23,276 - INFO - Processed 108700000 reads so far
2011-05-20 15:07:28,868 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:102990039-123010039
2011-05-20 15:07:33,957 - INFO - Processed 108800000 reads so far
2011-05-20 15:07:45,608 - INFO - Processed 108900000 reads so far
2011-05-20 15:07:55,774 - INFO - Processed 109000000 reads so far
2011-05-20 15:08:05,999 - INFO - Processed 109100000 reads so far
2011-05-20 15:08:17,619 - INFO - Processed 109200000 reads so far
2011-05-20 15:08:28,608 - INFO - Processed 109300000 reads so far
2011-05-20 15:08:39,437 - INFO - Processed 109400000 reads so far
2011-05-20 15:08:52,134 - INFO - Processed 109500000 reads so far
2011-05-20 15:09:04,830 - INFO - Processed 109600000 reads so far
2011-05-20 15:09:15,494 - INFO - Processed 109700000 reads so far
2011-05-20 15:09:35,918 - INFO - Processed 109800000 reads so far
2011-05-20 15:09:43,056 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:122990044-143010044
2011-05-20 15:09:45,902 - INFO - Processed 109900000 reads so far
2011-05-20 15:09:55,539 - INFO - Processed 110000000 reads so far
2011-05-20 15:10:11,868 - INFO - Processed 110100000 reads so far
2011-05-20 15:10:32,329 - INFO - Processed 110200000 reads so far
2011-05-20 15:10:45,111 - INFO - Processed 110300000 reads so far
2011-05-20 15:10:55,730 - INFO - Processed 110400000 reads so far
2011-05-20 15:11:04,259 - INFO - Processed 110500000 reads so far
2011-05-20 15:11:15,326 - INFO - Processed 110600000 reads so far
2011-05-20 15:11:26,804 - INFO - Processed 110700000 reads so far
2011-05-20 15:11:38,399 - INFO - Processed 110800000 reads so far
2011-05-20 15:11:50,810 - INFO - Processed 110900000 reads so far
2011-05-20 15:12:02,216 - INFO - Processed 111000000 reads so far
2011-05-20 15:12:14,841 - INFO - Processed 111100000 reads so far
2011-05-20 15:12:20,680 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:142990083-163010083
2011-05-20 15:12:26,912 - INFO - Processed 111200000 reads so far
2011-05-20 15:12:38,144 - INFO - Processed 111300000 reads so far
2011-05-20 15:12:48,950 - INFO - Processed 111400000 reads so far
2011-05-20 15:12:59,610 - INFO - Processed 111500000 reads so far
2011-05-20 15:13:11,602 - INFO - Processed 111600000 reads so far
2011-05-20 15:13:22,343 - INFO - Processed 111700000 reads so far
2011-05-20 15:13:35,353 - INFO - Processed 111800000 reads so far
2011-05-20 15:13:46,666 - INFO - Processed 111900000 reads so far
2011-05-20 15:13:58,902 - INFO - Processed 112000000 reads so far
2011-05-20 15:14:04,492 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4_random:0-20010057
2011-05-20 15:14:05,347 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:2990033-23010033
2011-05-20 15:14:10,382 - INFO - Processed 112100000 reads so far
2011-05-20 15:14:21,502 - INFO - Processed 112200000 reads so far
2011-05-20 15:14:32,611 - INFO - Processed 112300000 reads so far
2011-05-20 15:14:45,282 - INFO - Processed 112400000 reads so far
2011-05-20 15:14:56,806 - INFO - Processed 112500000 reads so far
2011-05-20 15:15:08,080 - INFO - Processed 112600000 reads so far
2011-05-20 15:15:18,812 - INFO - Processed 112700000 reads so far
2011-05-20 15:15:30,646 - INFO - Processed 112800000 reads so far
2011-05-20 15:15:39,594 - INFO - Processed 112900000 reads so far
2011-05-20 15:15:47,995 - INFO - Processed 113000000 reads so far
2011-05-20 15:15:57,987 - INFO - Processed 113100000 reads so far
2011-05-20 15:16:04,545 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:22990548-43010548
2011-05-20 15:16:06,992 - INFO - Processed 113200000 reads so far
2011-05-20 15:16:16,011 - INFO - Processed 113300000 reads so far
2011-05-20 15:16:25,807 - INFO - Processed 113400000 reads so far
2011-05-20 15:16:37,645 - INFO - Processed 113500000 reads so far
2011-05-20 15:16:46,828 - INFO - Processed 113600000 reads so far
2011-05-20 15:16:56,520 - INFO - Processed 113700000 reads so far
2011-05-20 15:17:06,623 - INFO - Processed 113800000 reads so far
2011-05-20 15:17:17,035 - INFO - Processed 113900000 reads so far
2011-05-20 15:17:28,354 - INFO - Processed 114000000 reads so far
2011-05-20 15:17:39,622 - INFO - Processed 114100000 reads so far
2011-05-20 15:17:49,596 - INFO - Processed 114200000 reads so far
2011-05-20 15:17:59,173 - INFO - Processed 114300000 reads so far
2011-05-20 15:18:09,804 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:42991711-63011711
2011-05-20 15:18:09,979 - INFO - Processed 114400000 reads so far
2011-05-20 15:18:19,537 - INFO - Processed 114500000 reads so far
2011-05-20 15:18:30,191 - INFO - Processed 114600000 reads so far
2011-05-20 15:18:41,141 - INFO - Processed 114700000 reads so far
2011-05-20 15:18:52,691 - INFO - Processed 114800000 reads so far
2011-05-20 15:19:03,614 - INFO - Processed 114900000 reads so far
2011-05-20 15:19:15,331 - INFO - Processed 115000000 reads so far
2011-05-20 15:19:26,540 - INFO - Processed 115100000 reads so far
2011-05-20 15:19:37,549 - INFO - Processed 115200000 reads so far
2011-05-20 15:19:49,058 - INFO - Processed 115300000 reads so far
2011-05-20 15:20:00,059 - INFO - Processed 115400000 reads so far
2011-05-20 15:20:09,604 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:62991728-83011728
2011-05-20 15:20:12,355 - INFO - Processed 115500000 reads so far
2011-05-20 15:20:23,562 - INFO - Processed 115600000 reads so far
2011-05-20 15:20:35,852 - INFO - Processed 115700000 reads so far
2011-05-20 15:20:46,463 - INFO - Processed 115800000 reads so far
2011-05-20 15:20:55,423 - INFO - Processed 115900000 reads so far
2011-05-20 15:21:05,046 - INFO - Processed 116000000 reads so far
2011-05-20 15:21:14,754 - INFO - Processed 116100000 reads so far
2011-05-20 15:21:24,775 - INFO - Processed 116200000 reads so far
2011-05-20 15:21:33,535 - INFO - Processed 116300000 reads so far
2011-05-20 15:21:42,679 - INFO - Processed 116400000 reads so far
2011-05-20 15:21:53,839 - INFO - Processed 116500000 reads so far
2011-05-20 15:22:05,311 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:82991733-103011733
2011-05-20 15:22:06,144 - INFO - Processed 116600000 reads so far
2011-05-20 15:22:17,298 - INFO - Processed 116700000 reads so far
2011-05-20 15:22:29,618 - INFO - Processed 116800000 reads so far
2011-05-20 15:22:41,366 - INFO - Processed 116900000 reads so far
2011-05-20 15:22:52,188 - INFO - Processed 117000000 reads so far
2011-05-20 15:23:01,776 - INFO - Processed 117100000 reads so far
2011-05-20 15:23:12,643 - INFO - Processed 117200000 reads so far
2011-05-20 15:23:23,372 - INFO - Processed 117300000 reads so far
2011-05-20 15:23:34,977 - INFO - Processed 117400000 reads so far
2011-05-20 15:23:46,242 - INFO - Processed 117500000 reads so far
2011-05-20 15:23:56,163 - INFO - Processed 117600000 reads so far
2011-05-20 15:24:03,844 - INFO - Processed 117700000 reads so far
2011-05-20 15:24:05,729 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:102991737-123011737
2011-05-20 15:24:14,519 - INFO - Processed 117800000 reads so far
2011-05-20 15:24:23,243 - INFO - Processed 117900000 reads so far
2011-05-20 15:24:31,945 - INFO - Processed 118000000 reads so far
2011-05-20 15:24:43,219 - INFO - Processed 118100000 reads so far
2011-05-20 15:24:52,578 - INFO - Processed 118200000 reads so far
2011-05-20 15:25:02,184 - INFO - Processed 118300000 reads so far
2011-05-20 15:25:12,282 - INFO - Processed 118400000 reads so far
2011-05-20 15:25:22,490 - INFO - Processed 118500000 reads so far
2011-05-20 15:25:30,510 - INFO - Processed 118600000 reads so far
2011-05-20 15:25:40,206 - INFO - Processed 118700000 reads so far
2011-05-20 15:25:50,778 - INFO - Processed 118800000 reads so far
2011-05-20 15:25:59,062 - INFO - Processed 118900000 reads so far
2011-05-20 15:26:07,901 - INFO - Processed 119000000 reads so far
2011-05-20 15:26:08,478 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:122991832-143011832
2011-05-20 15:26:17,338 - INFO - Processed 119100000 reads so far
2011-05-20 15:26:25,949 - INFO - Processed 119200000 reads so far
2011-05-20 15:26:34,518 - INFO - Processed 119300000 reads so far
2011-05-20 15:26:43,490 - INFO - Processed 119400000 reads so far
2011-05-20 15:26:51,581 - INFO - Processed 119500000 reads so far
2011-05-20 15:26:59,852 - INFO - Processed 119600000 reads so far
2011-05-20 15:27:08,997 - INFO - Processed 119700000 reads so far
2011-05-20 15:27:18,779 - INFO - Processed 119800000 reads so far
2011-05-20 15:27:28,257 - INFO - Processed 119900000 reads so far
2011-05-20 15:27:38,772 - INFO - Processed 120000000 reads so far
2011-05-20 15:27:48,366 - INFO - Processed 120100000 reads so far
2011-05-20 15:27:55,960 - INFO - Processed 120200000 reads so far
2011-05-20 15:28:03,437 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:142991842-163011842
2011-05-20 15:28:06,465 - INFO - Processed 120300000 reads so far
2011-05-20 15:28:17,745 - INFO - Processed 120400000 reads so far
2011-05-20 15:28:28,170 - INFO - Processed 120500000 reads so far
2011-05-20 15:28:37,559 - INFO - Processed 120600000 reads so far
2011-05-20 15:28:47,090 - INFO - Processed 120700000 reads so far
2011-05-20 15:28:57,034 - INFO - Processed 120800000 reads so far
2011-05-20 15:29:04,052 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5_random:0-20010059
2011-05-20 15:29:05,298 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:2989996-23009996
2011-05-20 15:29:09,188 - INFO - Processed 120900000 reads so far
2011-05-20 15:29:20,338 - INFO - Processed 121000000 reads so far
2011-05-20 15:29:31,299 - INFO - Processed 121100000 reads so far
2011-05-20 15:29:43,518 - INFO - Processed 121200000 reads so far
2011-05-20 15:29:54,459 - INFO - Processed 121300000 reads so far
2011-05-20 15:30:05,788 - INFO - Processed 121400000 reads so far
2011-05-20 15:30:17,908 - INFO - Processed 121500000 reads so far
2011-05-20 15:30:28,698 - INFO - Processed 121600000 reads so far
2011-05-20 15:30:39,476 - INFO - Processed 121700000 reads so far
2011-05-20 15:30:50,502 - INFO - Processed 121800000 reads so far
2011-05-20 15:31:00,937 - INFO - Processed 121900000 reads so far
2011-05-20 15:31:06,848 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:22990005-43010005
2011-05-20 15:31:10,458 - INFO - Processed 122000000 reads so far
2011-05-20 15:31:18,091 - INFO - Processed 122100000 reads so far
2011-05-20 15:31:25,745 - INFO - Processed 122200000 reads so far
2011-05-20 15:31:33,445 - INFO - Processed 122300000 reads so far
2011-05-20 15:31:41,879 - INFO - Processed 122400000 reads so far
2011-05-20 15:31:49,741 - INFO - Processed 122500000 reads so far
2011-05-20 15:31:57,071 - INFO - Processed 122600000 reads so far
2011-05-20 15:32:04,301 - INFO - Processed 122700000 reads so far
2011-05-20 15:32:11,831 - INFO - Processed 122800000 reads so far
2011-05-20 15:32:20,152 - INFO - Processed 122900000 reads so far
2011-05-20 15:32:28,159 - INFO - Processed 123000000 reads so far
2011-05-20 15:32:36,292 - INFO - Processed 123100000 reads so far
2011-05-20 15:32:38,202 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:42990045-63010045
2011-05-20 15:32:45,426 - INFO - Processed 123200000 reads so far
2011-05-20 15:32:53,317 - INFO - Processed 123300000 reads so far
2011-05-20 15:33:00,855 - INFO - Processed 123400000 reads so far
2011-05-20 15:33:09,241 - INFO - Processed 123500000 reads so far
2011-05-20 15:33:17,501 - INFO - Processed 123600000 reads so far
2011-05-20 15:33:25,681 - INFO - Processed 123700000 reads so far
2011-05-20 15:33:34,082 - INFO - Processed 123800000 reads so far
2011-05-20 15:33:43,128 - INFO - Processed 123900000 reads so far
2011-05-20 15:33:52,297 - INFO - Processed 124000000 reads so far
2011-05-20 15:34:01,803 - INFO - Processed 124100000 reads so far
2011-05-20 15:34:10,483 - INFO - Processed 124200000 reads so far
2011-05-20 15:34:16,902 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:62990063-83010063
2011-05-20 15:34:19,498 - INFO - Processed 124300000 reads so far
2011-05-20 15:34:28,898 - INFO - Processed 124400000 reads so far
2011-05-20 15:34:38,439 - INFO - Processed 124500000 reads so far
2011-05-20 15:34:46,559 - INFO - Processed 124600000 reads so far
2011-05-20 15:34:54,902 - INFO - Processed 124700000 reads so far
2011-05-20 15:35:03,374 - INFO - Processed 124800000 reads so far
2011-05-20 15:35:12,249 - INFO - Processed 124900000 reads so far
2011-05-20 15:35:20,483 - INFO - Processed 125000000 reads so far
2011-05-20 15:35:28,886 - INFO - Processed 125100000 reads so far
2011-05-20 15:35:36,477 - INFO - Processed 125200000 reads so far
2011-05-20 15:35:45,031 - INFO - Processed 125300000 reads so far
2011-05-20 15:35:52,193 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:82990097-103010097
2011-05-20 15:35:53,432 - INFO - Processed 125400000 reads so far
2011-05-20 15:36:01,271 - INFO - Processed 125500000 reads so far
2011-05-20 15:36:09,377 - INFO - Processed 125600000 reads so far
2011-05-20 15:36:18,268 - INFO - Processed 125700000 reads so far
2011-05-20 15:36:27,245 - INFO - Processed 125800000 reads so far
2011-05-20 15:36:34,575 - INFO - Processed 125900000 reads so far
2011-05-20 15:36:41,919 - INFO - Processed 126000000 reads so far
2011-05-20 15:36:50,780 - INFO - Processed 126100000 reads so far
2011-05-20 15:37:01,222 - INFO - Processed 126200000 reads so far
2011-05-20 15:37:09,678 - INFO - Processed 126300000 reads so far
2011-05-20 15:37:20,358 - INFO - Processed 126400000 reads so far
2011-05-20 15:37:29,764 - INFO - Processed 126500000 reads so far
2011-05-20 15:37:38,532 - INFO - Processed 126600000 reads so far
2011-05-20 15:37:40,400 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:102990104-123010104
2011-05-20 15:37:46,718 - INFO - Processed 126700000 reads so far
2011-05-20 15:37:53,595 - INFO - Processed 126800000 reads so far
2011-05-20 15:38:01,265 - INFO - Processed 126900000 reads so far
2011-05-20 15:38:07,896 - INFO - Processed 127000000 reads so far
2011-05-20 15:38:15,284 - INFO - Processed 127100000 reads so far
2011-05-20 15:38:22,995 - INFO - Processed 127200000 reads so far
2011-05-20 15:38:31,644 - INFO - Processed 127300000 reads so far
2011-05-20 15:38:38,714 - INFO - Processed 127400000 reads so far
2011-05-20 15:38:46,353 - INFO - Processed 127500000 reads so far
2011-05-20 15:38:54,699 - INFO - Processed 127600000 reads so far
2011-05-20 15:39:04,834 - INFO - Processed 127700000 reads so far
2011-05-20 15:39:14,283 - INFO - Processed 127800000 reads so far
2011-05-20 15:39:24,044 - INFO - Processed 127900000 reads so far
2011-05-20 15:39:32,743 - INFO - Processed 128000000 reads so far
2011-05-20 15:39:41,854 - INFO - Processed 128100000 reads so far
2011-05-20 15:39:51,550 - INFO - Processed 128200000 reads so far
2011-05-20 15:40:00,722 - INFO - Processed 128300000 reads so far
2011-05-20 15:40:09,782 - INFO - Processed 128400000 reads so far
2011-05-20 15:40:19,832 - INFO - Processed 128500000 reads so far
2011-05-20 15:40:29,044 - INFO - Processed 128600000 reads so far
2011-05-20 15:40:38,403 - INFO - Processed 128700000 reads so far
2011-05-20 15:40:41,557 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:122990111-143010111
2011-05-20 15:40:47,157 - INFO - Processed 128800000 reads so far
2011-05-20 15:40:56,472 - INFO - Processed 128900000 reads so far
2011-05-20 15:41:06,529 - INFO - Processed 129000000 reads so far
2011-05-20 15:41:14,997 - INFO - Processed 129100000 reads so far
2011-05-20 15:41:23,888 - INFO - Processed 129200000 reads so far
2011-05-20 15:41:32,740 - INFO - Processed 129300000 reads so far
2011-05-20 15:41:40,681 - INFO - Processed 129400000 reads so far
2011-05-20 15:41:49,683 - INFO - Processed 129500000 reads so far
2011-05-20 15:42:00,053 - INFO - Processed 129600000 reads so far
2011-05-20 15:42:08,522 - INFO - Processed 129700000 reads so far
2011-05-20 15:42:16,877 - INFO - Processed 129800000 reads so far
2011-05-20 15:42:25,494 - INFO - Processed 129900000 reads so far
2011-05-20 15:42:27,866 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:142990163-163010163
2011-05-20 15:42:33,556 - INFO - Processed 130000000 reads so far
2011-05-20 15:42:41,786 - INFO - Processed 130100000 reads so far
2011-05-20 15:42:50,360 - INFO - Processed 130200000 reads so far
2011-05-20 15:42:59,148 - INFO - Processed 130300000 reads so far
2011-05-20 15:43:01,108 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:2990026-23010026
2011-05-20 15:43:07,583 - INFO - Processed 130400000 reads so far
2011-05-20 15:43:16,935 - INFO - Processed 130500000 reads so far
2011-05-20 15:43:25,597 - INFO - Processed 130600000 reads so far
2011-05-20 15:43:35,448 - INFO - Processed 130700000 reads so far
2011-05-20 15:43:43,658 - INFO - Processed 130800000 reads so far
2011-05-20 15:43:53,323 - INFO - Processed 130900000 reads so far
2011-05-20 15:44:01,727 - INFO - Processed 131000000 reads so far
2011-05-20 15:44:10,286 - INFO - Processed 131100000 reads so far
2011-05-20 15:44:18,673 - INFO - Processed 131200000 reads so far
2011-05-20 15:44:28,290 - INFO - Processed 131300000 reads so far
2011-05-20 15:44:33,209 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:22990041-43010041
2011-05-20 15:44:36,561 - INFO - Processed 131400000 reads so far
2011-05-20 15:44:46,008 - INFO - Processed 131500000 reads so far
2011-05-20 15:44:55,697 - INFO - Processed 131600000 reads so far
2011-05-20 15:45:04,708 - INFO - Processed 131700000 reads so far
2011-05-20 15:45:13,402 - INFO - Processed 131800000 reads so far
2011-05-20 15:45:23,812 - INFO - Processed 131900000 reads so far
2011-05-20 15:45:32,771 - INFO - Processed 132000000 reads so far
2011-05-20 15:45:40,902 - INFO - Processed 132100000 reads so far
2011-05-20 15:45:50,069 - INFO - Processed 132200000 reads so far
2011-05-20 15:45:58,953 - INFO - Processed 132300000 reads so far
2011-05-20 15:46:00,333 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:46352106-66372106
2011-05-20 15:46:07,104 - INFO - Processed 132400000 reads so far
2011-05-20 15:46:15,415 - INFO - Processed 132500000 reads so far
2011-05-20 15:46:24,517 - INFO - Processed 132600000 reads so far
2011-05-20 15:46:33,731 - INFO - Processed 132700000 reads so far
2011-05-20 15:46:42,240 - INFO - Processed 132800000 reads so far
2011-05-20 15:46:51,749 - INFO - Processed 132900000 reads so far
2011-05-20 15:47:01,431 - INFO - Processed 133000000 reads so far
2011-05-20 15:47:09,960 - INFO - Processed 133100000 reads so far
2011-05-20 15:47:19,158 - INFO - Processed 133200000 reads so far
2011-05-20 15:47:28,131 - INFO - Processed 133300000 reads so far
2011-05-20 15:47:37,759 - INFO - Processed 133400000 reads so far
2011-05-20 15:47:46,419 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:66352188-86372188
2011-05-20 15:47:47,312 - INFO - Processed 133500000 reads so far
2011-05-20 15:47:56,076 - INFO - Processed 133600000 reads so far
2011-05-20 15:48:04,499 - INFO - Processed 133700000 reads so far
2011-05-20 15:48:12,540 - INFO - Processed 133800000 reads so far
2011-05-20 15:48:23,572 - INFO - Processed 133900000 reads so far
2011-05-20 15:48:32,723 - INFO - Processed 134000000 reads so far
2011-05-20 15:48:42,391 - INFO - Processed 134100000 reads so far
2011-05-20 15:48:51,840 - INFO - Processed 134200000 reads so far
2011-05-20 15:49:02,659 - INFO - Processed 134300000 reads so far
2011-05-20 15:49:11,519 - INFO - Processed 134400000 reads so far
2011-05-20 15:49:19,912 - INFO - Processed 134500000 reads so far
2011-05-20 15:49:27,518 - INFO - Processed 134600000 reads so far
2011-05-20 15:49:35,191 - INFO - Processed 134700000 reads so far
2011-05-20 15:49:36,224 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:86352189-106372189
2011-05-20 15:49:44,007 - INFO - Processed 134800000 reads so far
2011-05-20 15:49:54,096 - INFO - Processed 134900000 reads so far
2011-05-20 15:50:02,788 - INFO - Processed 135000000 reads so far
2011-05-20 15:50:10,749 - INFO - Processed 135100000 reads so far
2011-05-20 15:50:19,017 - INFO - Processed 135200000 reads so far
2011-05-20 15:50:28,627 - INFO - Processed 135300000 reads so far
2011-05-20 15:50:36,823 - INFO - Processed 135400000 reads so far
2011-05-20 15:50:46,217 - INFO - Processed 135500000 reads so far
2011-05-20 15:50:56,050 - INFO - Processed 135600000 reads so far
2011-05-20 15:51:05,089 - INFO - Processed 135700000 reads so far
2011-05-20 15:51:15,096 - INFO - Processed 135800000 reads so far
2011-05-20 15:51:21,530 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:106352191-126372191
2011-05-20 15:51:25,756 - INFO - Processed 135900000 reads so far
2011-05-20 15:51:35,343 - INFO - Processed 136000000 reads so far
2011-05-20 15:51:45,715 - INFO - Processed 136100000 reads so far
2011-05-20 15:51:54,504 - INFO - Processed 136200000 reads so far
2011-05-20 15:52:04,177 - INFO - Processed 136300000 reads so far
2011-05-20 15:52:14,002 - INFO - Processed 136400000 reads so far
2011-05-20 15:52:23,115 - INFO - Processed 136500000 reads so far
2011-05-20 15:52:32,191 - INFO - Processed 136600000 reads so far
2011-05-20 15:52:40,374 - INFO - Processed 136700000 reads so far
2011-05-20 15:52:49,246 - INFO - Processed 136800000 reads so far
2011-05-20 15:52:58,888 - INFO - Processed 136900000 reads so far
2011-05-20 15:53:07,041 - INFO - Processed 137000000 reads so far
2011-05-20 15:53:12,313 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:126352208-146372208
2011-05-20 15:53:15,742 - INFO - Processed 137100000 reads so far
2011-05-20 15:53:25,069 - INFO - Processed 137200000 reads so far
2011-05-20 15:53:33,339 - INFO - Processed 137300000 reads so far
2011-05-20 15:53:42,535 - INFO - Processed 137400000 reads so far
2011-05-20 15:53:50,773 - INFO - Processed 137500000 reads so far
2011-05-20 15:53:59,266 - INFO - Processed 137600000 reads so far
2011-05-20 15:54:06,842 - INFO - Processed 137700000 reads so far
2011-05-20 15:54:14,435 - INFO - Processed 137800000 reads so far
2011-05-20 15:54:22,859 - INFO - Processed 137900000 reads so far
2011-05-20 15:54:33,524 - INFO - Processed 138000000 reads so far
2011-05-20 15:54:42,100 - INFO - Processed 138100000 reads so far
2011-05-20 15:54:50,473 - INFO - Processed 138200000 reads so far
2011-05-20 15:55:00,471 - INFO - Processed 138300000 reads so far
2011-05-20 15:55:03,711 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:146352233-166372233
2011-05-20 15:55:08,420 - INFO - Processed 138400000 reads so far
2011-05-20 15:55:17,088 - INFO - Processed 138500000 reads so far
2011-05-20 15:55:25,575 - INFO - Processed 138600000 reads so far
2011-05-20 15:55:33,242 - INFO - Processed 138700000 reads so far
2011-05-20 15:55:39,542 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7_random:0-20010205
2011-05-20 15:55:40,417 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:2990011-23010011
2011-05-20 15:55:42,105 - INFO - Processed 138800000 reads so far
2011-05-20 15:55:52,318 - INFO - Processed 138900000 reads so far
2011-05-20 15:56:01,649 - INFO - Processed 139000000 reads so far
2011-05-20 15:56:11,281 - INFO - Processed 139100000 reads so far
2011-05-20 15:56:20,593 - INFO - Processed 139200000 reads so far
2011-05-20 15:56:28,462 - INFO - Processed 139300000 reads so far
2011-05-20 15:56:36,252 - INFO - Processed 139400000 reads so far
2011-05-20 15:56:43,705 - INFO - Processed 139500000 reads so far
2011-05-20 15:56:52,979 - INFO - Processed 139600000 reads so far
2011-05-20 15:57:00,679 - INFO - Processed 139700000 reads so far
2011-05-20 15:57:07,774 - INFO - Processed 139800000 reads so far
2011-05-20 15:57:14,638 - INFO - Processed 139900000 reads so far
2011-05-20 15:57:21,441 - INFO - Processed 140000000 reads so far
2011-05-20 15:57:26,934 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:22990019-43010019
2011-05-20 15:57:28,663 - INFO - Processed 140100000 reads so far
2011-05-20 15:57:38,078 - INFO - Processed 140200000 reads so far
2011-05-20 15:57:45,607 - INFO - Processed 140300000 reads so far
2011-05-20 15:57:53,427 - INFO - Processed 140400000 reads so far
2011-05-20 15:58:01,846 - INFO - Processed 140500000 reads so far
2011-05-20 15:58:09,043 - INFO - Processed 140600000 reads so far
2011-05-20 15:58:17,146 - INFO - Processed 140700000 reads so far
2011-05-20 15:58:24,181 - INFO - Processed 140800000 reads so far
2011-05-20 15:58:32,330 - INFO - Processed 140900000 reads so far
2011-05-20 15:58:39,856 - INFO - Processed 141000000 reads so far
2011-05-20 15:58:47,930 - INFO - Processed 141100000 reads so far
2011-05-20 15:58:56,235 - INFO - Processed 141200000 reads so far
2011-05-20 15:58:57,300 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:42990037-63010037
2011-05-20 15:59:04,987 - INFO - Processed 141300000 reads so far
2011-05-20 15:59:12,146 - INFO - Processed 141400000 reads so far
2011-05-20 15:59:19,548 - INFO - Processed 141500000 reads so far
2011-05-20 15:59:27,909 - INFO - Processed 141600000 reads so far
2011-05-20 15:59:35,979 - INFO - Processed 141700000 reads so far
2011-05-20 15:59:43,042 - INFO - Processed 141800000 reads so far
2011-05-20 15:59:50,528 - INFO - Processed 141900000 reads so far
2011-05-20 15:59:57,881 - INFO - Processed 142000000 reads so far
2011-05-20 16:00:05,529 - INFO - Processed 142100000 reads so far
2011-05-20 16:00:12,551 - INFO - Processed 142200000 reads so far
2011-05-20 16:00:13,083 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:62990087-83010087
2011-05-20 16:00:20,465 - INFO - Processed 142300000 reads so far
2011-05-20 16:00:27,905 - INFO - Processed 142400000 reads so far
2011-05-20 16:00:36,860 - INFO - Processed 142500000 reads so far
2011-05-20 16:00:44,564 - INFO - Processed 142600000 reads so far
2011-05-20 16:00:53,317 - INFO - Processed 142700000 reads so far
2011-05-20 16:01:01,802 - INFO - Processed 142800000 reads so far
2011-05-20 16:01:09,518 - INFO - Processed 142900000 reads so far
2011-05-20 16:01:17,420 - INFO - Processed 143000000 reads so far
2011-05-20 16:01:24,892 - INFO - Processed 143100000 reads so far
2011-05-20 16:01:32,883 - INFO - Processed 143200000 reads so far
2011-05-20 16:01:40,915 - INFO - Processed 143300000 reads so far
2011-05-20 16:01:48,242 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:82990147-103010147
2011-05-20 16:01:49,639 - INFO - Processed 143400000 reads so far
2011-05-20 16:01:57,229 - INFO - Processed 143500000 reads so far
2011-05-20 16:02:05,590 - INFO - Processed 143600000 reads so far
2011-05-20 16:02:13,129 - INFO - Processed 143700000 reads so far
2011-05-20 16:02:20,894 - INFO - Processed 143800000 reads so far
2011-05-20 16:02:28,149 - INFO - Processed 143900000 reads so far
2011-05-20 16:02:35,953 - INFO - Processed 144000000 reads so far
2011-05-20 16:02:44,933 - INFO - Processed 144100000 reads so far
2011-05-20 16:02:52,305 - INFO - Processed 144200000 reads so far
2011-05-20 16:03:00,466 - INFO - Processed 144300000 reads so far
2011-05-20 16:03:08,529 - INFO - Processed 144400000 reads so far
2011-05-20 16:03:15,421 - INFO - Processed 144500000 reads so far
2011-05-20 16:03:20,239 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:102990182-123010182
2011-05-20 16:03:22,718 - INFO - Processed 144600000 reads so far
2011-05-20 16:03:29,995 - INFO - Processed 144700000 reads so far
2011-05-20 16:03:37,960 - INFO - Processed 144800000 reads so far
2011-05-20 16:03:45,581 - INFO - Processed 144900000 reads so far
2011-05-20 16:03:53,467 - INFO - Processed 145000000 reads so far
2011-05-20 16:04:01,276 - INFO - Processed 145100000 reads so far
2011-05-20 16:04:09,291 - INFO - Processed 145200000 reads so far
2011-05-20 16:04:17,776 - INFO - Processed 145300000 reads so far
2011-05-20 16:04:25,264 - INFO - Processed 145400000 reads so far
2011-05-20 16:04:32,547 - INFO - Processed 145500000 reads so far
2011-05-20 16:04:40,059 - INFO - Processed 145600000 reads so far
2011-05-20 16:04:47,625 - INFO - Processed 145700000 reads so far
2011-05-20 16:04:53,758 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:122990210-143010210
2011-05-20 16:04:55,142 - INFO - Processed 145800000 reads so far
2011-05-20 16:05:03,322 - INFO - Processed 145900000 reads so far
2011-05-20 16:05:12,655 - INFO - Processed 146000000 reads so far
2011-05-20 16:05:19,493 - INFO - Processed 146100000 reads so far
2011-05-20 16:05:26,827 - INFO - Processed 146200000 reads so far
2011-05-20 16:05:34,358 - INFO - Processed 146300000 reads so far
2011-05-20 16:05:40,375 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8_random:0-20010011
2011-05-20 16:05:42,056 - INFO - Processed 146400000 reads so far
2011-05-20 16:05:48,615 - INFO - Processed 146500000 reads so far
2011-05-20 16:05:50,197 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:2989966-23009966
2011-05-20 16:05:54,974 - INFO - Processed 146600000 reads so far
2011-05-20 16:06:01,422 - INFO - Processed 146700000 reads so far
2011-05-20 16:06:07,730 - INFO - Processed 146800000 reads so far
2011-05-20 16:06:14,885 - INFO - Processed 146900000 reads so far
2011-05-20 16:06:20,675 - INFO - Processed 147000000 reads so far
2011-05-20 16:06:26,900 - INFO - Processed 147100000 reads so far
2011-05-20 16:06:32,967 - INFO - Processed 147200000 reads so far
2011-05-20 16:06:39,456 - INFO - Processed 147300000 reads so far
2011-05-20 16:06:45,957 - INFO - Processed 147400000 reads so far
2011-05-20 16:06:52,308 - INFO - Processed 147500000 reads so far
2011-05-20 16:06:59,197 - INFO - Processed 147600000 reads so far
2011-05-20 16:07:05,557 - INFO - Processed 147700000 reads so far
2011-05-20 16:07:12,038 - INFO - Processed 147800000 reads so far
2011-05-20 16:07:18,040 - INFO - Processed 147900000 reads so far
2011-05-20 16:07:24,361 - INFO - Processed 148000000 reads so far
2011-05-20 16:07:31,376 - INFO - Processed 148100000 reads so far
2011-05-20 16:07:39,210 - INFO - Processed 148200000 reads so far
2011-05-20 16:07:46,537 - INFO - Processed 148300000 reads so far
2011-05-20 16:07:52,704 - INFO - Processed 148400000 reads so far
2011-05-20 16:07:59,342 - INFO - Processed 148500000 reads so far
2011-05-20 16:08:05,212 - INFO - Processed 148600000 reads so far
2011-05-20 16:08:11,353 - INFO - Processed 148700000 reads so far
2011-05-20 16:08:17,076 - INFO - Processed 148800000 reads so far
2011-05-20 16:08:23,398 - INFO - Processed 148900000 reads so far
2011-05-20 16:08:29,521 - INFO - Processed 149000000 reads so far
2011-05-20 16:08:35,911 - INFO - Processed 149100000 reads so far
2011-05-20 16:08:42,107 - INFO - Processed 149200000 reads so far
2011-05-20 16:08:48,319 - INFO - Processed 149300000 reads so far
2011-05-20 16:08:55,036 - INFO - Processed 149400000 reads so far
2011-05-20 16:09:01,485 - INFO - Processed 149500000 reads so far
2011-05-20 16:09:07,887 - INFO - Processed 149600000 reads so far
2011-05-20 16:09:14,098 - INFO - Processed 149700000 reads so far
2011-05-20 16:09:21,308 - INFO - Processed 149800000 reads so far
2011-05-20 16:09:29,090 - INFO - Processed 149900000 reads so far
2011-05-20 16:09:36,293 - INFO - Processed 150000000 reads so far
2011-05-20 16:09:42,944 - INFO - Processed 150100000 reads so far
2011-05-20 16:09:49,729 - INFO - Processed 150200000 reads so far
2011-05-20 16:09:55,755 - INFO - Processed 150300000 reads so far
2011-05-20 16:10:02,505 - INFO - Processed 150400000 reads so far
2011-05-20 16:10:08,488 - INFO - Processed 150500000 reads so far
2011-05-20 16:10:14,947 - INFO - Processed 150600000 reads so far
2011-05-20 16:10:20,984 - INFO - Processed 150700000 reads so far
2011-05-20 16:10:27,226 - INFO - Processed 150800000 reads so far
2011-05-20 16:10:33,493 - INFO - Processed 150900000 reads so far
2011-05-20 16:10:40,048 - INFO - Processed 151000000 reads so far
2011-05-20 16:10:45,622 - INFO - Processed 151100000 reads so far
2011-05-20 16:10:51,989 - INFO - Processed 151200000 reads so far
2011-05-20 16:10:58,332 - INFO - Processed 151300000 reads so far
2011-05-20 16:11:05,821 - INFO - Processed 151400000 reads so far
2011-05-20 16:11:12,866 - INFO - Processed 151500000 reads so far
2011-05-20 16:11:18,926 - INFO - Processed 151600000 reads so far
2011-05-20 16:11:25,220 - INFO - Processed 151700000 reads so far
2011-05-20 16:11:30,931 - INFO - Processed 151800000 reads so far
2011-05-20 16:11:36,782 - INFO - Processed 151900000 reads so far
2011-05-20 16:11:43,971 - INFO - Processed 152000000 reads so far
2011-05-20 16:11:51,001 - INFO - Processed 152100000 reads so far
2011-05-20 16:11:57,210 - INFO - Processed 152200000 reads so far
2011-05-20 16:12:03,634 - INFO - Processed 152300000 reads so far
2011-05-20 16:12:09,787 - INFO - Processed 152400000 reads so far
2011-05-20 16:12:16,903 - INFO - Processed 152500000 reads so far
2011-05-20 16:12:22,990 - INFO - Processed 152600000 reads so far
2011-05-20 16:12:29,760 - INFO - Processed 152700000 reads so far
2011-05-20 16:12:36,757 - INFO - Processed 152800000 reads so far
2011-05-20 16:12:44,035 - INFO - Processed 152900000 reads so far
2011-05-20 16:12:49,843 - INFO - Processed 153000000 reads so far
2011-05-20 16:12:57,100 - INFO - Processed 153100000 reads so far
2011-05-20 16:13:03,215 - INFO - Processed 153200000 reads so far
2011-05-20 16:13:10,294 - INFO - Processed 153300000 reads so far
2011-05-20 16:13:16,973 - INFO - Processed 153400000 reads so far
2011-05-20 16:13:23,520 - INFO - Processed 153500000 reads so far
2011-05-20 16:13:30,028 - INFO - Processed 153600000 reads so far
2011-05-20 16:13:37,196 - INFO - Processed 153700000 reads so far
2011-05-20 16:13:43,769 - INFO - Processed 153800000 reads so far
2011-05-20 16:13:50,379 - INFO - Processed 153900000 reads so far
2011-05-20 16:13:56,706 - INFO - Processed 154000000 reads so far
2011-05-20 16:14:03,756 - INFO - Processed 154100000 reads so far
2011-05-20 16:14:11,824 - INFO - Processed 154200000 reads so far
2011-05-20 16:14:19,389 - INFO - Processed 154300000 reads so far
2011-05-20 16:14:26,785 - INFO - Processed 154400000 reads so far
2011-05-20 16:14:33,149 - INFO - Processed 154500000 reads so far
2011-05-20 16:14:39,716 - INFO - Processed 154600000 reads so far
2011-05-20 16:14:45,367 - INFO - Processed 154700000 reads so far
2011-05-20 16:14:51,667 - INFO - Processed 154800000 reads so far
2011-05-20 16:14:57,556 - INFO - Processed 154900000 reads so far
2011-05-20 16:15:04,640 - INFO - Processed 155000000 reads so far
2011-05-20 16:15:11,900 - INFO - Processed 155100000 reads so far
2011-05-20 16:15:19,170 - INFO - Processed 155200000 reads so far
2011-05-20 16:15:26,155 - INFO - Processed 155300000 reads so far
2011-05-20 16:15:33,893 - INFO - Processed 155400000 reads so far
2011-05-20 16:15:41,211 - INFO - Processed 155500000 reads so far
2011-05-20 16:15:47,969 - INFO - Processed 155600000 reads so far
2011-05-20 16:15:54,731 - INFO - Processed 155700000 reads so far
2011-05-20 16:16:02,559 - INFO - Processed 155800000 reads so far
2011-05-20 16:16:09,713 - INFO - Processed 155900000 reads so far
2011-05-20 16:16:17,105 - INFO - Processed 156000000 reads so far
2011-05-20 16:16:20,845 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:22989972-43009972
2011-05-20 16:16:24,585 - INFO - Processed 156100000 reads so far
2011-05-20 16:16:33,573 - INFO - Processed 156200000 reads so far
2011-05-20 16:16:41,178 - INFO - Processed 156300000 reads so far
2011-05-20 16:16:48,190 - INFO - Processed 156400000 reads so far
2011-05-20 16:16:55,474 - INFO - Processed 156500000 reads so far
2011-05-20 16:17:03,364 - INFO - Processed 156600000 reads so far
2011-05-20 16:17:11,141 - INFO - Processed 156700000 reads so far
2011-05-20 16:17:17,941 - INFO - Processed 156800000 reads so far
2011-05-20 16:17:23,817 - INFO - Processed 156900000 reads so far
2011-05-20 16:17:30,610 - INFO - Processed 157000000 reads so far
2011-05-20 16:17:40,548 - INFO - Processed 157100000 reads so far
2011-05-20 16:17:49,001 - INFO - Processed 157200000 reads so far
2011-05-20 16:17:56,494 - INFO - Processed 157300000 reads so far
2011-05-20 16:18:02,235 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:42989976-63009976
2011-05-20 16:18:03,671 - INFO - Processed 157400000 reads so far
2011-05-20 16:18:11,527 - INFO - Processed 157500000 reads so far
2011-05-20 16:18:18,863 - INFO - Processed 157600000 reads so far
2011-05-20 16:18:25,865 - INFO - Processed 157700000 reads so far
2011-05-20 16:18:34,330 - INFO - Processed 157800000 reads so far
2011-05-20 16:18:41,856 - INFO - Processed 157900000 reads so far
2011-05-20 16:18:50,020 - INFO - Processed 158000000 reads so far
2011-05-20 16:18:59,018 - INFO - Processed 158100000 reads so far
2011-05-20 16:19:06,771 - INFO - Processed 158200000 reads so far
2011-05-20 16:19:14,935 - INFO - Processed 158300000 reads so far
2011-05-20 16:19:22,717 - INFO - Processed 158400000 reads so far
2011-05-20 16:19:30,670 - INFO - Processed 158500000 reads so far
2011-05-20 16:19:37,722 - INFO - Processed 158600000 reads so far
2011-05-20 16:19:39,757 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:62990040-83010040
2011-05-20 16:19:45,982 - INFO - Processed 158700000 reads so far
2011-05-20 16:19:53,505 - INFO - Processed 158800000 reads so far
2011-05-20 16:20:00,738 - INFO - Processed 158900000 reads so far
2011-05-20 16:20:07,785 - INFO - Processed 159000000 reads so far
2011-05-20 16:20:14,983 - INFO - Processed 159100000 reads so far
2011-05-20 16:20:22,378 - INFO - Processed 159200000 reads so far
2011-05-20 16:20:30,260 - INFO - Processed 159300000 reads so far
2011-05-20 16:20:37,355 - INFO - Processed 159400000 reads so far
2011-05-20 16:20:44,567 - INFO - Processed 159500000 reads so far
2011-05-20 16:20:51,767 - INFO - Processed 159600000 reads so far
2011-05-20 16:20:59,425 - INFO - Processed 159700000 reads so far
2011-05-20 16:21:06,409 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:82990059-103010059
2011-05-20 16:21:07,052 - INFO - Processed 159800000 reads so far
2011-05-20 16:21:14,309 - INFO - Processed 159900000 reads so far
2011-05-20 16:21:22,051 - INFO - Processed 160000000 reads so far
2011-05-20 16:21:29,310 - INFO - Processed 160100000 reads so far
2011-05-20 16:21:36,536 - INFO - Processed 160200000 reads so far
2011-05-20 16:21:43,938 - INFO - Processed 160300000 reads so far
2011-05-20 16:21:51,479 - INFO - Processed 160400000 reads so far
2011-05-20 16:21:58,922 - INFO - Processed 160500000 reads so far
2011-05-20 16:22:07,894 - INFO - Processed 160600000 reads so far
2011-05-20 16:22:15,773 - INFO - Processed 160700000 reads so far
2011-05-20 16:22:22,980 - INFO - Processed 160800000 reads so far
2011-05-20 16:22:30,451 - INFO - Processed 160900000 reads so far
2011-05-20 16:22:36,088 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:102990080-123010080
2011-05-20 16:22:39,128 - INFO - Processed 161000000 reads so far
2011-05-20 16:22:46,500 - INFO - Processed 161100000 reads so far
2011-05-20 16:22:53,930 - INFO - Processed 161200000 reads so far
2011-05-20 16:23:01,474 - INFO - Processed 161300000 reads so far
2011-05-20 16:23:08,886 - INFO - Processed 161400000 reads so far
2011-05-20 16:23:16,112 - INFO - Processed 161500000 reads so far
2011-05-20 16:23:22,782 - INFO - Processed 161600000 reads so far
2011-05-20 16:23:30,244 - INFO - Processed 161700000 reads so far
2011-05-20 16:23:39,570 - INFO - Processed 161800000 reads so far
2011-05-20 16:23:47,347 - INFO - Processed 161900000 reads so far
2011-05-20 16:23:54,576 - INFO - Processed 162000000 reads so far
2011-05-20 16:24:01,840 - INFO - Processed 162100000 reads so far
2011-05-20 16:24:10,048 - INFO - Processed 162200000 reads so far
2011-05-20 16:24:11,872 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:122990103-143010103
2011-05-20 16:24:16,934 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9_random:0-20010035
2011-05-20 16:24:17,850 - INFO - Processed 162300000 reads so far
2011-05-20 16:24:19,751 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrM:0-20010000
2011-05-20 16:24:23,177 - INFO - Processed 162400000 reads so far
2011-05-20 16:24:24,273 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrUn_random:0-20010003
2011-05-20 16:24:30,494 - INFO - Processed 162500000 reads so far
2011-05-20 16:24:37,422 - INFO - Processed 162600000 reads so far
2011-05-20 16:24:44,478 - INFO - Processed 162700000 reads so far
2011-05-20 16:24:50,884 - INFO - Processed 162800000 reads so far
2011-05-20 16:24:56,626 - INFO - Processed 162900000 reads so far
2011-05-20 16:24:58,537 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:2989998-23009998
2011-05-20 16:25:03,682 - INFO - Processed 163000000 reads so far
2011-05-20 16:25:11,131 - INFO - Processed 163100000 reads so far
2011-05-20 16:25:19,346 - INFO - Processed 163200000 reads so far
2011-05-20 16:25:26,908 - INFO - Processed 163300000 reads so far
2011-05-20 16:25:34,506 - INFO - Processed 163400000 reads so far
2011-05-20 16:25:44,362 - INFO - Processed 163500000 reads so far
2011-05-20 16:25:52,720 - INFO - Processed 163600000 reads so far
2011-05-20 16:25:54,992 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:22990019-43010019
2011-05-20 16:26:00,378 - INFO - Processed 163700000 reads so far
2011-05-20 16:26:08,696 - INFO - Processed 163800000 reads so far
2011-05-20 16:26:19,139 - INFO - Processed 163900000 reads so far
2011-05-20 16:26:25,800 - INFO - Processed 164000000 reads so far
2011-05-20 16:26:34,676 - INFO - Processed 164100000 reads so far
2011-05-20 16:26:42,344 - INFO - Processed 164200000 reads so far
2011-05-20 16:26:50,972 - INFO - Processed 164300000 reads so far
2011-05-20 16:26:51,592 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:42990021-63010021
2011-05-20 16:26:58,816 - INFO - Processed 164400000 reads so far
2011-05-20 16:27:06,452 - INFO - Processed 164500000 reads so far
2011-05-20 16:27:14,252 - INFO - Processed 164600000 reads so far
2011-05-20 16:27:21,998 - INFO - Processed 164700000 reads so far
2011-05-20 16:27:30,431 - INFO - Processed 164800000 reads so far
2011-05-20 16:27:37,808 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:62990045-83010045
2011-05-20 16:27:38,213 - INFO - Processed 164900000 reads so far
2011-05-20 16:27:47,315 - INFO - Processed 165000000 reads so far
2011-05-20 16:27:55,320 - INFO - Processed 165100000 reads so far
2011-05-20 16:28:03,379 - INFO - Processed 165200000 reads so far
2011-05-20 16:28:10,578 - INFO - Processed 165300000 reads so far
2011-05-20 16:28:18,267 - INFO - Processed 165400000 reads so far
2011-05-20 16:28:25,200 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:82990133-103010133
2011-05-20 16:28:25,867 - INFO - Processed 165500000 reads so far
2011-05-20 16:28:33,341 - INFO - Processed 165600000 reads so far
2011-05-20 16:28:42,244 - INFO - Processed 165700000 reads so far
2011-05-20 16:28:50,368 - INFO - Processed 165800000 reads so far
2011-05-20 16:28:57,855 - INFO - Processed 165900000 reads so far
2011-05-20 16:29:05,723 - INFO - Processed 166000000 reads so far
2011-05-20 16:29:11,447 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:102990233-123010233
2011-05-20 16:29:13,662 - INFO - Processed 166100000 reads so far
2011-05-20 16:29:21,960 - INFO - Processed 166200000 reads so far
2011-05-20 16:29:29,422 - INFO - Processed 166300000 reads so far
2011-05-20 16:29:37,483 - INFO - Processed 166400000 reads so far
2011-05-20 16:29:45,250 - INFO - Processed 166500000 reads so far
2011-05-20 16:29:52,881 - INFO - Processed 166600000 reads so far
2011-05-20 16:30:00,533 - INFO - Processed 166700000 reads so far
2011-05-20 16:30:03,411 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:122990260-143010260
2011-05-20 16:30:07,985 - INFO - Processed 166800000 reads so far
2011-05-20 16:30:15,801 - INFO - Processed 166900000 reads so far
2011-05-20 16:30:23,735 - INFO - Processed 167000000 reads so far
2011-05-20 16:30:31,302 - INFO - Processed 167100000 reads so far
2011-05-20 16:30:38,794 - INFO - Processed 167200000 reads so far
2011-05-20 16:30:45,691 - INFO - Processed 167300000 reads so far
2011-05-20 16:30:55,163 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:142990473-163010473
2011-05-20 16:30:55,425 - INFO - Processed 167400000 reads so far
2011-05-20 16:31:05,541 - INFO - Processed 167500000 reads so far
2011-05-20 16:31:13,186 - INFO - Processed 167600000 reads so far
2011-05-20 16:31:21,032 - INFO - Processed 167700000 reads so far
2011-05-20 16:31:33,723 - INFO - Processed 167800000 reads so far
2011-05-20 16:31:42,109 - INFO - Processed 167900000 reads so far
2011-05-20 16:31:46,938 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:162990547-183010547
2011-05-20 16:31:49,612 - INFO - Processed 168000000 reads so far
2011-05-20 16:31:57,364 - INFO - Processed 168100000 reads so far
2011-05-20 16:32:03,412 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX_random:0-20010000
2011-05-20 16:32:03,631 - INFO - Processed 168200000 reads so far
2011-05-20 16:32:06,333 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrY:0-20010016
2011-05-20 16:32:10,893 - INFO - Processed 168300000 reads so far
2011-05-20 16:32:13,034 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrY_random:0-20010383
2011-05-20 16:32:17,789 - INFO - Processed 168400000 reads so far
2011-05-20 16:32:25,503 - INFO - Processed 168500000 reads so far
2011-05-20 16:32:32,154 - INFO - Processed 168600000 reads so far
2011-05-20 16:32:39,049 - INFO - Processed 168700000 reads so far
2011-05-20 16:32:46,649 - INFO - Processed 168800000 reads so far
2011-05-20 16:32:53,754 - INFO - Processed 168900000 reads so far
2011-05-20 16:33:01,795 - INFO - Processed 169000000 reads so far
2011-05-20 16:33:08,183 - INFO - Processed 169100000 reads so far
2011-05-20 16:33:15,612 - INFO - Processed 169200000 reads so far
2011-05-20 16:33:15,831 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrY_random:19990553-40010553
2011-05-20 16:33:22,461 - INFO - Processed 169300000 reads so far
2011-05-20 16:33:29,287 - INFO - Processed 169400000 reads so far
2011-05-20 16:33:36,951 - INFO - Processed 169500000 reads so far
2011-05-20 16:33:44,466 - INFO - Processed 169600000 reads so far
2011-05-20 16:33:51,366 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrY_random:39990577-60010577
2011-05-20 16:33:52,637 - INFO - Processed 169700000 reads so far
2011-05-20 16:33:59,353 - INFO - Processed 169800000 reads so far
2011-05-20 16:34:07,396 - INFO - Processed 169900000 reads so far
2011-05-20 16:34:15,728 - INFO - Processed 170000000 reads so far
2011-05-20 16:34:23,757 - INFO - Processed 170100000 reads so far
2011-05-20 16:34:30,402 - INFO - Processed 170200000 reads so far
2011-05-20 16:34:36,923 - INFO - Processed 170300000 reads so far
2011-05-20 16:34:42,795 - INFO - Processed 170400000 reads so far
2011-05-20 16:34:46,002 - INFO - Processed 170500000 reads so far
2011-05-20 16:34:49,727 - INFO - Processed 170600000 reads so far
2011-05-20 16:34:53,149 - INFO - Processed 170700000 reads so far
2011-05-20 16:34:55,892 - INFO - Processed 170800000 reads so far
2011-05-20 16:34:59,446 - INFO - Processed 170900000 reads so far
2011-05-20 16:35:02,625 - INFO - Processed 171000000 reads so far
2011-05-20 16:35:06,128 - INFO - Processed 171100000 reads so far
2011-05-20 16:35:09,721 - INFO - Processed 171200000 reads so far
2011-05-20 16:35:12,682 - INFO - Processed 171300000 reads so far
2011-05-20 16:35:16,693 - INFO - Processed 171400000 reads so far
2011-05-20 16:35:20,931 - INFO - Processed 171500000 reads so far
2011-05-20 16:35:24,410 - INFO - Processed 171600000 reads so far
2011-05-20 16:35:28,885 - INFO - Processed 171700000 reads so far
2011-05-20 16:35:32,045 - INFO - Processed 171800000 reads so far
2011-05-20 16:35:34,790 - INFO - Finished loading data. Outputting QC metrics
2011-05-20 16:35:53,239 - INFO - Finished outputting QC metrics
2011-05-20 16:35:53,342 - INFO - Finished generating QC metrics