2011-05-20 11:00:34,910 - INFO - Generating QC metrics for BAM File ['WTCHG_11891.bam']
2011-05-20 11:00:34,910 - INFO - Output will go to WTCHG_11891.qc.txt.tmp
2011-05-20 11:00:34,910 - INFO - Reading GC Map from file /data/Genomes/gcMap/Mouse37.gcMap.gz
2011-05-20 11:03:27,828 - INFO - Finished reading GC Map
2011-05-20 11:03:27,828 - INFO - Reading CDS from exon definition file /data/Genomes/annotation/Mouse37.refGene.txt.gz
2011-05-20 11:03:29,574 - INFO - Read 382138 exons (33804740 nucleotides) for 32 chromosomes
2011-05-20 11:03:29,575 - INFO - Computing coverage cut-off
2011-05-20 11:03:29,575 - INFO - Retrieving BAM file coverage info from samtools pileup
2011-05-20 11:03:34,140 - INFO - Processed 1000000 pile-up sites
2011-05-20 11:03:38,198 - INFO - Processed 2000000 pile-up sites
2011-05-20 11:03:43,606 - INFO - Processed 3000000 pile-up sites
2011-05-20 11:03:47,491 - INFO - Processed 4000000 pile-up sites
2011-05-20 11:03:51,375 - INFO - Processed 5000000 pile-up sites
2011-05-20 11:03:56,125 - INFO - Processed 6000000 pile-up sites
2011-05-20 11:03:59,846 - INFO - Processed 7000000 pile-up sites
2011-05-20 11:04:03,441 - INFO - Processed 8000000 pile-up sites
2011-05-20 11:04:07,332 - INFO - Processed 9000000 pile-up sites
2011-05-20 11:04:11,177 - INFO - Processed 10000000 pile-up sites
2011-05-20 11:04:15,406 - INFO - Processed 11000000 pile-up sites
2011-05-20 11:04:19,289 - INFO - Processed 12000000 pile-up sites
2011-05-20 11:04:22,493 - INFO - Processed 13000000 pile-up sites
2011-05-20 11:04:24,805 - INFO - Processed 14000000 pile-up sites
2011-05-20 11:04:27,122 - INFO - Processed 15000000 pile-up sites
2011-05-20 11:04:29,456 - INFO - Processed 16000000 pile-up sites
2011-05-20 11:04:34,945 - INFO - Processed 17000000 pile-up sites
2011-05-20 11:04:40,017 - INFO - Processed 18000000 pile-up sites
2011-05-20 11:04:44,308 - INFO - Processed 19000000 pile-up sites
2011-05-20 11:04:48,353 - INFO - Processed 20000000 pile-up sites
2011-05-20 11:04:51,846 - INFO - Processed 21000000 pile-up sites
2011-05-20 11:04:56,195 - INFO - Processed 22000000 pile-up sites
2011-05-20 11:05:00,422 - INFO - Processed 23000000 pile-up sites
2011-05-20 11:05:05,739 - INFO - Processed 24000000 pile-up sites
2011-05-20 11:05:10,518 - INFO - Processed 25000000 pile-up sites
2011-05-20 11:05:14,686 - INFO - Processed 26000000 pile-up sites
2011-05-20 11:05:19,025 - INFO - Processed 27000000 pile-up sites
2011-05-20 11:05:23,642 - INFO - Processed 28000000 pile-up sites
2011-05-20 11:05:27,403 - INFO - Processed 29000000 pile-up sites
2011-05-20 11:05:31,922 - INFO - Processed 30000000 pile-up sites
2011-05-20 11:05:36,277 - INFO - Processed 31000000 pile-up sites
2011-05-20 11:05:38,671 - INFO - Processed 32000000 pile-up sites
2011-05-20 11:05:40,983 - INFO - Processed 33000000 pile-up sites
2011-05-20 11:05:43,290 - INFO - Processed 34000000 pile-up sites
2011-05-20 11:05:46,919 - INFO - Processed 35000000 pile-up sites
2011-05-20 11:05:50,690 - INFO - Processed 36000000 pile-up sites
2011-05-20 11:05:53,137 - INFO - Finished processing pile-up on 36578316 sites (200000004 nucleotides)
2011-05-20 11:05:53,137 - INFO - Coverage cut-off value is 45
2011-05-20 11:05:53,137 - INFO - Loading data into QC data manager
2011-05-20 11:05:53,382 - INFO - Reading data from BAM file WTCHG_11891.bam. All reads in file will be read
2011-05-20 11:05:53,426 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:2990022-23010022
2011-05-20 11:06:04,025 - INFO - Processed 100000 reads so far
2011-05-20 11:06:13,295 - INFO - Processed 200000 reads so far
2011-05-20 11:06:21,941 - INFO - Processed 300000 reads so far
2011-05-20 11:06:30,078 - INFO - Processed 400000 reads so far
2011-05-20 11:06:38,405 - INFO - Processed 500000 reads so far
2011-05-20 11:06:46,235 - INFO - Processed 600000 reads so far
2011-05-20 11:06:54,672 - INFO - Processed 700000 reads so far
2011-05-20 11:07:03,500 - INFO - Processed 800000 reads so far
2011-05-20 11:07:12,310 - INFO - Processed 900000 reads so far
2011-05-20 11:07:21,454 - INFO - Processed 1000000 reads so far
2011-05-20 11:07:29,309 - INFO - Processed 1100000 reads so far
2011-05-20 11:07:30,046 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:22990078-43010078
2011-05-20 11:07:37,766 - INFO - Processed 1200000 reads so far
2011-05-20 11:07:45,752 - INFO - Processed 1300000 reads so far
2011-05-20 11:07:54,058 - INFO - Processed 1400000 reads so far
2011-05-20 11:08:02,037 - INFO - Processed 1500000 reads so far
2011-05-20 11:08:10,335 - INFO - Processed 1600000 reads so far
2011-05-20 11:08:18,764 - INFO - Processed 1700000 reads so far
2011-05-20 11:08:27,453 - INFO - Processed 1800000 reads so far
2011-05-20 11:08:34,844 - INFO - Processed 1900000 reads so far
2011-05-20 11:08:42,920 - INFO - Processed 2000000 reads so far
2011-05-20 11:08:51,369 - INFO - Processed 2100000 reads so far
2011-05-20 11:08:53,178 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:42990108-63010108
2011-05-20 11:08:59,646 - INFO - Processed 2200000 reads so far
2011-05-20 11:09:07,707 - INFO - Processed 2300000 reads so far
2011-05-20 11:09:17,908 - INFO - Processed 2400000 reads so far
2011-05-20 11:09:26,589 - INFO - Processed 2500000 reads so far
2011-05-20 11:09:52,010 - INFO - Processed 2600000 reads so far
2011-05-20 11:10:02,276 - INFO - Processed 2700000 reads so far
2011-05-20 11:10:16,051 - INFO - Processed 2800000 reads so far
2011-05-20 11:10:35,770 - INFO - Processed 2900000 reads so far
2011-05-20 11:10:45,531 - INFO - Processed 3000000 reads so far
2011-05-20 11:11:08,893 - INFO - Processed 3100000 reads so far
2011-05-20 11:11:14,164 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:62990129-83010129
2011-05-20 11:11:23,199 - INFO - Processed 3200000 reads so far
2011-05-20 11:11:44,712 - INFO - Processed 3300000 reads so far
2011-05-20 11:11:56,783 - INFO - Processed 3400000 reads so far
2011-05-20 11:12:07,519 - INFO - Processed 3500000 reads so far
2011-05-20 11:12:18,569 - INFO - Processed 3600000 reads so far
2011-05-20 11:12:29,834 - INFO - Processed 3700000 reads so far
2011-05-20 11:12:41,086 - INFO - Processed 3800000 reads so far
2011-05-20 11:12:51,210 - INFO - Processed 3900000 reads so far
2011-05-20 11:13:01,293 - INFO - Processed 4000000 reads so far
2011-05-20 11:13:11,877 - INFO - Processed 4100000 reads so far
2011-05-20 11:13:18,421 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:82990149-103010149
2011-05-20 11:13:24,009 - INFO - Processed 4200000 reads so far
2011-05-20 11:13:33,465 - INFO - Processed 4300000 reads so far
2011-05-20 11:13:40,668 - INFO - Processed 4400000 reads so far
2011-05-20 11:13:52,705 - INFO - Processed 4500000 reads so far
2011-05-20 11:14:02,020 - INFO - Processed 4600000 reads so far
2011-05-20 11:14:09,796 - INFO - Processed 4700000 reads so far
2011-05-20 11:14:20,737 - INFO - Processed 4800000 reads so far
2011-05-20 11:14:30,267 - INFO - Processed 4900000 reads so far
2011-05-20 11:14:39,282 - INFO - Processed 5000000 reads so far
2011-05-20 11:14:48,167 - INFO - Processed 5100000 reads so far
2011-05-20 11:14:58,717 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:102990174-123010174
2011-05-20 11:14:59,066 - INFO - Processed 5200000 reads so far
2011-05-20 11:15:11,945 - INFO - Processed 5300000 reads so far
2011-05-20 11:15:22,653 - INFO - Processed 5400000 reads so far
2011-05-20 11:15:33,254 - INFO - Processed 5500000 reads so far
2011-05-20 11:15:45,339 - INFO - Processed 5600000 reads so far
2011-05-20 11:15:55,959 - INFO - Processed 5700000 reads so far
2011-05-20 11:16:06,586 - INFO - Processed 5800000 reads so far
2011-05-20 11:16:17,586 - INFO - Processed 5900000 reads so far
2011-05-20 11:16:28,468 - INFO - Processed 6000000 reads so far
2011-05-20 11:16:39,774 - INFO - Processed 6100000 reads so far
2011-05-20 11:16:49,169 - INFO - Processed 6200000 reads so far
2011-05-20 11:16:49,860 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:122990175-143010175
2011-05-20 11:17:00,098 - INFO - Processed 6300000 reads so far
2011-05-20 11:17:10,021 - INFO - Processed 6400000 reads so far
2011-05-20 11:17:20,542 - INFO - Processed 6500000 reads so far
2011-05-20 11:17:27,612 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:2990008-23010008
2011-05-20 11:17:31,304 - INFO - Processed 6600000 reads so far
2011-05-20 11:17:40,506 - INFO - Processed 6700000 reads so far
2011-05-20 11:17:51,530 - INFO - Processed 6800000 reads so far
2011-05-20 11:18:03,486 - INFO - Processed 6900000 reads so far
2011-05-20 11:18:15,113 - INFO - Processed 7000000 reads so far
2011-05-20 11:18:26,495 - INFO - Processed 7100000 reads so far
2011-05-20 11:18:37,806 - INFO - Processed 7200000 reads so far
2011-05-20 11:19:35,483 - INFO - Processed 7300000 reads so far
2011-05-20 11:19:47,034 - INFO - Processed 7400000 reads so far
2011-05-20 11:20:00,081 - INFO - Processed 7500000 reads so far
2011-05-20 11:20:11,370 - INFO - Processed 7600000 reads so far
2011-05-20 11:20:22,967 - INFO - Processed 7700000 reads so far
2011-05-20 11:20:26,199 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:22990031-43010031
2011-05-20 11:20:36,440 - INFO - Processed 7800000 reads so far
2011-05-20 11:20:51,039 - INFO - Processed 7900000 reads so far
2011-05-20 11:21:01,928 - INFO - Processed 8000000 reads so far
2011-05-20 11:21:13,441 - INFO - Processed 8100000 reads so far
2011-05-20 11:21:24,754 - INFO - Processed 8200000 reads so far
2011-05-20 11:21:37,507 - INFO - Processed 8300000 reads so far
2011-05-20 11:21:49,578 - INFO - Processed 8400000 reads so far
2011-05-20 11:22:00,739 - INFO - Processed 8500000 reads so far
2011-05-20 11:22:11,921 - INFO - Processed 8600000 reads so far
2011-05-20 11:22:24,433 - INFO - Processed 8700000 reads so far
2011-05-20 11:22:29,735 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:42990039-63010039
2011-05-20 11:22:35,985 - INFO - Processed 8800000 reads so far
2011-05-20 11:22:47,976 - INFO - Processed 8900000 reads so far
2011-05-20 11:22:59,514 - INFO - Processed 9000000 reads so far
2011-05-20 11:23:12,014 - INFO - Processed 9100000 reads so far
2011-05-20 11:23:22,352 - INFO - Processed 9200000 reads so far
2011-05-20 11:23:33,903 - INFO - Processed 9300000 reads so far
2011-05-20 11:23:44,871 - INFO - Processed 9400000 reads so far
2011-05-20 11:23:55,820 - INFO - Processed 9500000 reads so far
2011-05-20 11:24:07,230 - INFO - Processed 9600000 reads so far
2011-05-20 11:24:18,520 - INFO - Processed 9700000 reads so far
2011-05-20 11:24:33,477 - INFO - Processed 9800000 reads so far
2011-05-20 11:24:35,405 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:62990079-83010079
2011-05-20 11:24:44,548 - INFO - Processed 9900000 reads so far
2011-05-20 11:24:55,347 - INFO - Processed 10000000 reads so far
2011-05-20 11:25:09,047 - INFO - Processed 10100000 reads so far
2011-05-20 11:25:19,082 - INFO - Processed 10200000 reads so far
2011-05-20 11:25:31,014 - INFO - Processed 10300000 reads so far
2011-05-20 11:25:49,698 - INFO - Processed 10400000 reads so far
2011-05-20 11:26:02,161 - INFO - Processed 10500000 reads so far
2011-05-20 11:26:14,471 - INFO - Processed 10600000 reads so far
2011-05-20 11:26:25,308 - INFO - Processed 10700000 reads so far
2011-05-20 11:26:36,088 - INFO - Processed 10800000 reads so far
2011-05-20 11:26:42,263 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:82990118-103010118
2011-05-20 11:26:44,419 - INFO - Processed 10900000 reads so far
2011-05-20 11:26:53,731 - INFO - Processed 11000000 reads so far
2011-05-20 11:27:02,945 - INFO - Processed 11100000 reads so far
2011-05-20 11:27:10,852 - INFO - Processed 11200000 reads so far
2011-05-20 11:27:21,021 - INFO - Processed 11300000 reads so far
2011-05-20 11:27:32,771 - INFO - Processed 11400000 reads so far
2011-05-20 11:27:41,038 - INFO - Processed 11500000 reads so far
2011-05-20 11:27:54,139 - INFO - Processed 11600000 reads so far
2011-05-20 11:28:05,840 - INFO - Processed 11700000 reads so far
2011-05-20 11:28:17,685 - INFO - Processed 11800000 reads so far
2011-05-20 11:28:29,451 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:102990124-123010124
2011-05-20 11:28:29,833 - INFO - Processed 11900000 reads so far
2011-05-20 11:28:40,617 - INFO - Processed 12000000 reads so far
2011-05-20 11:28:51,462 - INFO - Processed 12100000 reads so far
2011-05-20 11:29:03,785 - INFO - Processed 12200000 reads so far
2011-05-20 11:29:15,046 - INFO - Processed 12300000 reads so far
2011-05-20 11:29:26,213 - INFO - Processed 12400000 reads so far
2011-05-20 11:29:38,617 - INFO - Processed 12500000 reads so far
2011-05-20 11:29:53,829 - INFO - Processed 12600000 reads so far
2011-05-20 11:30:06,754 - INFO - Processed 12700000 reads so far
2011-05-20 11:30:19,334 - INFO - Processed 12800000 reads so far
2011-05-20 11:30:29,713 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:2990070-23010070
2011-05-20 11:30:30,704 - INFO - Processed 12900000 reads so far
2011-05-20 11:30:39,296 - INFO - Processed 13000000 reads so far
2011-05-20 11:30:49,989 - INFO - Processed 13100000 reads so far
2011-05-20 11:30:59,951 - INFO - Processed 13200000 reads so far
2011-05-20 11:31:10,769 - INFO - Processed 13300000 reads so far
2011-05-20 11:31:20,485 - INFO - Processed 13400000 reads so far
2011-05-20 11:31:31,865 - INFO - Processed 13500000 reads so far
2011-05-20 11:31:44,064 - INFO - Processed 13600000 reads so far
2011-05-20 11:31:56,381 - INFO - Processed 13700000 reads so far
2011-05-20 11:32:07,104 - INFO - Processed 13800000 reads so far
2011-05-20 11:32:18,195 - INFO - Processed 13900000 reads so far
2011-05-20 11:32:29,074 - INFO - Processed 14000000 reads so far
2011-05-20 11:32:35,972 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:22990402-43010402
2011-05-20 11:32:40,423 - INFO - Processed 14100000 reads so far
2011-05-20 11:32:51,717 - INFO - Processed 14200000 reads so far
2011-05-20 11:33:04,122 - INFO - Processed 14300000 reads so far
2011-05-20 11:33:15,368 - INFO - Processed 14400000 reads so far
2011-05-20 11:33:25,917 - INFO - Processed 14500000 reads so far
2011-05-20 11:33:39,123 - INFO - Processed 14600000 reads so far
2011-05-20 11:33:50,599 - INFO - Processed 14700000 reads so far
2011-05-20 11:34:00,764 - INFO - Processed 14800000 reads so far
2011-05-20 11:34:25,989 - INFO - Processed 14900000 reads so far
2011-05-20 11:34:37,450 - INFO - Processed 15000000 reads so far
2011-05-20 11:34:43,287 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:42990416-63010416
2011-05-20 11:34:51,139 - INFO - Processed 15100000 reads so far
2011-05-20 11:35:02,649 - INFO - Processed 15200000 reads so far
2011-05-20 11:35:14,501 - INFO - Processed 15300000 reads so far
2011-05-20 11:35:26,516 - INFO - Processed 15400000 reads so far
2011-05-20 11:35:38,494 - INFO - Processed 15500000 reads so far
2011-05-20 11:35:53,503 - INFO - Processed 15600000 reads so far
2011-05-20 11:36:05,928 - INFO - Processed 15700000 reads so far
2011-05-20 11:36:18,194 - INFO - Processed 15800000 reads so far
2011-05-20 11:36:28,252 - INFO - Processed 15900000 reads so far
2011-05-20 11:36:39,272 - INFO - Processed 16000000 reads so far
2011-05-20 11:36:41,201 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:62990418-83010418
2011-05-20 11:36:49,062 - INFO - Processed 16100000 reads so far
2011-05-20 11:37:00,155 - INFO - Processed 16200000 reads so far
2011-05-20 11:37:11,848 - INFO - Processed 16300000 reads so far
2011-05-20 11:37:24,379 - INFO - Processed 16400000 reads so far
2011-05-20 11:37:37,251 - INFO - Processed 16500000 reads so far
2011-05-20 11:37:50,238 - INFO - Processed 16600000 reads so far
2011-05-20 11:38:02,548 - INFO - Processed 16700000 reads so far
2011-05-20 11:38:13,545 - INFO - Processed 16800000 reads so far
2011-05-20 11:38:24,641 - INFO - Processed 16900000 reads so far
2011-05-20 11:38:36,489 - INFO - Processed 17000000 reads so far
2011-05-20 11:38:41,754 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:82990426-103010426
2011-05-20 11:38:48,426 - INFO - Processed 17100000 reads so far
2011-05-20 11:39:00,302 - INFO - Processed 17200000 reads so far
2011-05-20 11:39:11,395 - INFO - Processed 17300000 reads so far
2011-05-20 11:39:26,632 - INFO - Processed 17400000 reads so far
2011-05-20 11:39:37,587 - INFO - Processed 17500000 reads so far
2011-05-20 11:39:49,628 - INFO - Processed 17600000 reads so far
2011-05-20 11:40:01,766 - INFO - Processed 17700000 reads so far
2011-05-20 11:40:15,555 - INFO - Processed 17800000 reads so far
2011-05-20 11:40:29,181 - INFO - Processed 17900000 reads so far
2011-05-20 11:40:46,288 - INFO - Processed 18000000 reads so far
2011-05-20 11:40:53,776 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:102990448-123010448
2011-05-20 11:40:59,110 - INFO - Processed 18100000 reads so far
2011-05-20 11:41:11,088 - INFO - Processed 18200000 reads so far
2011-05-20 11:41:23,441 - INFO - Processed 18300000 reads so far
2011-05-20 11:41:35,487 - INFO - Processed 18400000 reads so far
2011-05-20 11:41:47,710 - INFO - Processed 18500000 reads so far
2011-05-20 11:41:59,438 - INFO - Processed 18600000 reads so far
2011-05-20 11:42:10,871 - INFO - Processed 18700000 reads so far
2011-05-20 11:42:22,117 - INFO - Processed 18800000 reads so far
2011-05-20 11:42:31,962 - INFO - Processed 18900000 reads so far
2011-05-20 11:42:43,201 - INFO - Processed 19000000 reads so far
2011-05-20 11:42:50,396 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:2990031-23010031
2011-05-20 11:42:54,371 - INFO - Processed 19100000 reads so far
2011-05-20 11:43:06,040 - INFO - Processed 19200000 reads so far
2011-05-20 11:43:15,892 - INFO - Processed 19300000 reads so far
2011-05-20 11:43:26,083 - INFO - Processed 19400000 reads so far
2011-05-20 11:43:35,295 - INFO - Processed 19500000 reads so far
2011-05-20 11:43:47,124 - INFO - Processed 19600000 reads so far
2011-05-20 11:43:58,440 - INFO - Processed 19700000 reads so far
2011-05-20 11:44:13,195 - INFO - Processed 19800000 reads so far
2011-05-20 11:44:24,841 - INFO - Processed 19900000 reads so far
2011-05-20 11:44:36,501 - INFO - Processed 20000000 reads so far
2011-05-20 11:44:46,338 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:22990033-43010033
2011-05-20 11:44:50,013 - INFO - Processed 20100000 reads so far
2011-05-20 11:45:00,498 - INFO - Processed 20200000 reads so far
2011-05-20 11:45:09,322 - INFO - Processed 20300000 reads so far
2011-05-20 11:45:18,138 - INFO - Processed 20400000 reads so far
2011-05-20 11:45:28,515 - INFO - Processed 20500000 reads so far
2011-05-20 11:45:37,775 - INFO - Processed 20600000 reads so far
2011-05-20 11:45:46,671 - INFO - Processed 20700000 reads so far
2011-05-20 11:45:55,475 - INFO - Processed 20800000 reads so far
2011-05-20 11:46:06,987 - INFO - Processed 20900000 reads so far
2011-05-20 11:46:17,936 - INFO - Processed 21000000 reads so far
2011-05-20 11:46:32,470 - INFO - Processed 21100000 reads so far
2011-05-20 11:46:35,447 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:42990070-63010070
2011-05-20 11:46:45,074 - INFO - Processed 21200000 reads so far
2011-05-20 11:47:02,783 - INFO - Processed 21300000 reads so far
2011-05-20 11:47:14,976 - INFO - Processed 21400000 reads so far
2011-05-20 11:47:26,280 - INFO - Processed 21500000 reads so far
2011-05-20 11:47:39,846 - INFO - Processed 21600000 reads so far
2011-05-20 11:47:51,835 - INFO - Processed 21700000 reads so far
2011-05-20 11:48:03,847 - INFO - Processed 21800000 reads so far
2011-05-20 11:48:18,075 - INFO - Processed 21900000 reads so far
2011-05-20 11:48:29,607 - INFO - Processed 22000000 reads so far
2011-05-20 11:48:41,189 - INFO - Processed 22100000 reads so far
2011-05-20 11:48:52,553 - INFO - Processed 22200000 reads so far
2011-05-20 11:48:53,763 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:62990077-83010077
2011-05-20 11:49:05,289 - INFO - Processed 22300000 reads so far
2011-05-20 11:49:16,531 - INFO - Processed 22400000 reads so far
2011-05-20 11:49:28,189 - INFO - Processed 22500000 reads so far
2011-05-20 11:49:39,812 - INFO - Processed 22600000 reads so far
2011-05-20 11:49:52,713 - INFO - Processed 22700000 reads so far
2011-05-20 11:50:05,210 - INFO - Processed 22800000 reads so far
2011-05-20 11:50:16,763 - INFO - Processed 22900000 reads so far
2011-05-20 11:50:28,371 - INFO - Processed 23000000 reads so far
2011-05-20 11:50:39,863 - INFO - Processed 23100000 reads so far
2011-05-20 11:50:53,518 - INFO - Processed 23200000 reads so far
2011-05-20 11:51:01,555 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:82990100-103010100
2011-05-20 11:51:05,063 - INFO - Processed 23300000 reads so far
2011-05-20 11:51:16,413 - INFO - Processed 23400000 reads so far
2011-05-20 11:51:29,971 - INFO - Processed 23500000 reads so far
2011-05-20 11:51:42,238 - INFO - Processed 23600000 reads so far
2011-05-20 11:51:57,302 - INFO - Processed 23700000 reads so far
2011-05-20 11:52:10,176 - INFO - Processed 23800000 reads so far
2011-05-20 11:52:21,495 - INFO - Processed 23900000 reads so far
2011-05-20 11:52:34,265 - INFO - Processed 24000000 reads so far
2011-05-20 11:52:47,616 - INFO - Processed 24100000 reads so far
2011-05-20 11:53:01,213 - INFO - Processed 24200000 reads so far
2011-05-20 11:53:09,962 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:102990113-123010113
2011-05-20 11:53:15,092 - INFO - Processed 24300000 reads so far
2011-05-20 11:53:28,422 - INFO - Processed 24400000 reads so far
2011-05-20 11:53:40,686 - INFO - Processed 24500000 reads so far
2011-05-20 11:53:55,386 - INFO - Processed 24600000 reads so far
2011-05-20 11:54:08,100 - INFO - Processed 24700000 reads so far
2011-05-20 11:54:21,887 - INFO - Processed 24800000 reads so far
2011-05-20 11:54:35,798 - INFO - Processed 24900000 reads so far
2011-05-20 11:54:47,676 - INFO - Processed 25000000 reads so far
2011-05-20 11:54:59,574 - INFO - Processed 25100000 reads so far
2011-05-20 11:55:05,452 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13_random:0-20010000
2011-05-20 11:55:06,705 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:2990101-23010101
2011-05-20 11:55:11,141 - INFO - Processed 25200000 reads so far
2011-05-20 11:55:23,289 - INFO - Processed 25300000 reads so far
2011-05-20 11:55:34,902 - INFO - Processed 25400000 reads so far
2011-05-20 11:55:47,082 - INFO - Processed 25500000 reads so far
2011-05-20 11:55:58,806 - INFO - Processed 25600000 reads so far
2011-05-20 11:56:10,822 - INFO - Processed 25700000 reads so far
2011-05-20 11:56:23,756 - INFO - Processed 25800000 reads so far
2011-05-20 11:56:36,239 - INFO - Processed 25900000 reads so far
2011-05-20 11:56:48,482 - INFO - Processed 26000000 reads so far
2011-05-20 11:57:02,363 - INFO - Processed 26100000 reads so far
2011-05-20 11:57:15,105 - INFO - Processed 26200000 reads so far
2011-05-20 11:57:17,273 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:22990112-43010112
2011-05-20 11:57:30,245 - INFO - Processed 26300000 reads so far
2011-05-20 11:57:43,460 - INFO - Processed 26400000 reads so far
2011-05-20 11:57:56,188 - INFO - Processed 26500000 reads so far
2011-05-20 11:58:08,158 - INFO - Processed 26600000 reads so far
2011-05-20 11:58:21,107 - INFO - Processed 26700000 reads so far
2011-05-20 11:58:33,269 - INFO - Processed 26800000 reads so far
2011-05-20 11:58:46,297 - INFO - Processed 26900000 reads so far
2011-05-20 11:58:58,613 - INFO - Processed 27000000 reads so far
2011-05-20 11:59:10,940 - INFO - Processed 27100000 reads so far
2011-05-20 11:59:22,518 - INFO - Processed 27200000 reads so far
2011-05-20 11:59:30,486 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:42990140-63010140
2011-05-20 11:59:34,877 - INFO - Processed 27300000 reads so far
2011-05-20 11:59:46,215 - INFO - Processed 27400000 reads so far
2011-05-20 11:59:58,471 - INFO - Processed 27500000 reads so far
2011-05-20 12:00:12,010 - INFO - Processed 27600000 reads so far
2011-05-20 12:00:24,564 - INFO - Processed 27700000 reads so far
2011-05-20 12:00:36,689 - INFO - Processed 27800000 reads so far
2011-05-20 12:00:48,396 - INFO - Processed 27900000 reads so far
2011-05-20 12:01:00,349 - INFO - Processed 28000000 reads so far
2011-05-20 12:01:13,820 - INFO - Processed 28100000 reads so far
2011-05-20 12:01:26,122 - INFO - Processed 28200000 reads so far
2011-05-20 12:01:39,438 - INFO - Processed 28300000 reads so far
2011-05-20 12:01:53,486 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:62990158-83010158
2011-05-20 12:01:55,506 - INFO - Processed 28400000 reads so far
2011-05-20 12:02:07,960 - INFO - Processed 28500000 reads so far
2011-05-20 12:02:21,354 - INFO - Processed 28600000 reads so far
2011-05-20 12:02:33,786 - INFO - Processed 28700000 reads so far
2011-05-20 12:02:44,932 - INFO - Processed 28800000 reads so far
2011-05-20 12:02:58,164 - INFO - Processed 28900000 reads so far
2011-05-20 12:03:13,127 - INFO - Processed 29000000 reads so far
2011-05-20 12:03:24,973 - INFO - Processed 29100000 reads so far
2011-05-20 12:03:37,781 - INFO - Processed 29200000 reads so far
2011-05-20 12:03:49,899 - INFO - Processed 29300000 reads so far
2011-05-20 12:04:03,646 - INFO - Processed 29400000 reads so far
2011-05-20 12:04:10,055 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:82990183-103010183
2011-05-20 12:04:15,528 - INFO - Processed 29500000 reads so far
2011-05-20 12:04:25,992 - INFO - Processed 29600000 reads so far
2011-05-20 12:04:37,466 - INFO - Processed 29700000 reads so far
2011-05-20 12:04:49,832 - INFO - Processed 29800000 reads so far
2011-05-20 12:05:01,610 - INFO - Processed 29900000 reads so far
2011-05-20 12:05:13,746 - INFO - Processed 30000000 reads so far
2011-05-20 12:05:25,842 - INFO - Processed 30100000 reads so far
2011-05-20 12:05:37,214 - INFO - Processed 30200000 reads so far
2011-05-20 12:05:49,266 - INFO - Processed 30300000 reads so far
2011-05-20 12:05:57,753 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:102990194-123010194
2011-05-20 12:06:02,005 - INFO - Processed 30400000 reads so far
2011-05-20 12:06:14,808 - INFO - Processed 30500000 reads so far
2011-05-20 12:06:28,243 - INFO - Processed 30600000 reads so far
2011-05-20 12:06:40,784 - INFO - Processed 30700000 reads so far
2011-05-20 12:06:52,428 - INFO - Processed 30800000 reads so far
2011-05-20 12:07:07,856 - INFO - Processed 30900000 reads so far
2011-05-20 12:07:25,151 - INFO - Processed 31000000 reads so far
2011-05-20 12:07:37,622 - INFO - Processed 31100000 reads so far
2011-05-20 12:07:50,181 - INFO - Processed 31200000 reads so far
2011-05-20 12:08:03,339 - INFO - Processed 31300000 reads so far
2011-05-20 12:08:11,363 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:122990274-143010274
2011-05-20 12:08:15,847 - INFO - Processed 31400000 reads so far
2011-05-20 12:08:25,073 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:2990006-23010006
2011-05-20 12:08:28,647 - INFO - Processed 31500000 reads so far
2011-05-20 12:08:40,950 - INFO - Processed 31600000 reads so far
2011-05-20 12:08:52,425 - INFO - Processed 31700000 reads so far
2011-05-20 12:09:04,818 - INFO - Processed 31800000 reads so far
2011-05-20 12:09:17,572 - INFO - Processed 31900000 reads so far
2011-05-20 12:09:29,125 - INFO - Processed 32000000 reads so far
2011-05-20 12:09:41,628 - INFO - Processed 32100000 reads so far
2011-05-20 12:09:53,469 - INFO - Processed 32200000 reads so far
2011-05-20 12:10:04,880 - INFO - Processed 32300000 reads so far
2011-05-20 12:10:17,059 - INFO - Processed 32400000 reads so far
2011-05-20 12:10:24,444 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:22990008-43010008
2011-05-20 12:10:29,450 - INFO - Processed 32500000 reads so far
2011-05-20 12:10:41,264 - INFO - Processed 32600000 reads so far
2011-05-20 12:10:58,980 - INFO - Processed 32700000 reads so far
2011-05-20 12:11:17,870 - INFO - Processed 32800000 reads so far
2011-05-20 12:11:30,600 - INFO - Processed 32900000 reads so far
2011-05-20 12:11:53,974 - INFO - Processed 33000000 reads so far
2011-05-20 12:12:06,684 - INFO - Processed 33100000 reads so far
2011-05-20 12:12:23,380 - INFO - Processed 33200000 reads so far
2011-05-20 12:12:37,064 - INFO - Processed 33300000 reads so far
2011-05-20 12:12:48,741 - INFO - Processed 33400000 reads so far
2011-05-20 12:12:59,081 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:42990039-63010039
2011-05-20 12:12:59,762 - INFO - Processed 33500000 reads so far
2011-05-20 12:13:19,140 - INFO - Processed 33600000 reads so far
2011-05-20 12:13:32,654 - INFO - Processed 33700000 reads so far
2011-05-20 12:13:53,155 - INFO - Processed 33800000 reads so far
2011-05-20 12:14:05,601 - INFO - Processed 33900000 reads so far
2011-05-20 12:14:17,435 - INFO - Processed 34000000 reads so far
2011-05-20 12:14:33,196 - INFO - Processed 34100000 reads so far
2011-05-20 12:14:47,110 - INFO - Processed 34200000 reads so far
2011-05-20 12:15:05,101 - INFO - Processed 34300000 reads so far
2011-05-20 12:15:19,583 - INFO - Processed 34400000 reads so far
2011-05-20 12:15:32,238 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:62990057-83010057
2011-05-20 12:15:32,362 - INFO - Processed 34500000 reads so far
2011-05-20 12:15:47,451 - INFO - Processed 34600000 reads so far
2011-05-20 12:15:59,763 - INFO - Processed 34700000 reads so far
2011-05-20 12:16:11,500 - INFO - Processed 34800000 reads so far
2011-05-20 12:16:22,172 - INFO - Processed 34900000 reads so far
2011-05-20 12:16:35,508 - INFO - Processed 35000000 reads so far
2011-05-20 12:16:49,101 - INFO - Processed 35100000 reads so far
2011-05-20 12:16:59,028 - INFO - Processed 35200000 reads so far
2011-05-20 12:17:09,265 - INFO - Processed 35300000 reads so far
2011-05-20 12:17:19,495 - INFO - Processed 35400000 reads so far
2011-05-20 12:17:30,526 - INFO - Processed 35500000 reads so far
2011-05-20 12:17:41,533 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:82990065-103010065
2011-05-20 12:17:43,962 - INFO - Processed 35600000 reads so far
2011-05-20 12:17:59,237 - INFO - Processed 35700000 reads so far
2011-05-20 12:18:10,487 - INFO - Processed 35800000 reads so far
2011-05-20 12:18:22,471 - INFO - Processed 35900000 reads so far
2011-05-20 12:18:34,831 - INFO - Processed 36000000 reads so far
2011-05-20 12:18:45,966 - INFO - Processed 36100000 reads so far
2011-05-20 12:18:57,205 - INFO - Processed 36200000 reads so far
2011-05-20 12:19:08,502 - INFO - Processed 36300000 reads so far
2011-05-20 12:19:19,896 - INFO - Processed 36400000 reads so far
2011-05-20 12:19:30,891 - INFO - Processed 36500000 reads so far
2011-05-20 12:19:43,321 - INFO - Processed 36600000 reads so far
2011-05-20 12:19:47,852 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:102990077-123010077
2011-05-20 12:19:50,652 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16:2990022-23010022
2011-05-20 12:19:54,693 - INFO - Processed 36700000 reads so far
2011-05-20 12:20:06,092 - INFO - Processed 36800000 reads so far
2011-05-20 12:20:19,612 - INFO - Processed 36900000 reads so far
2011-05-20 12:20:33,193 - INFO - Processed 37000000 reads so far
2011-05-20 12:20:45,138 - INFO - Processed 37100000 reads so far
2011-05-20 12:20:57,297 - INFO - Processed 37200000 reads so far
2011-05-20 12:21:10,146 - INFO - Processed 37300000 reads so far
2011-05-20 12:21:22,660 - INFO - Processed 37400000 reads so far
2011-05-20 12:21:35,130 - INFO - Processed 37500000 reads so far
2011-05-20 12:21:47,220 - INFO - Processed 37600000 reads so far
2011-05-20 12:22:00,378 - INFO - Processed 37700000 reads so far
2011-05-20 12:22:10,232 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16:22990044-43010044
2011-05-20 12:22:13,119 - INFO - Processed 37800000 reads so far
2011-05-20 12:22:25,838 - INFO - Processed 37900000 reads so far
2011-05-20 12:22:38,806 - INFO - Processed 38000000 reads so far
2011-05-20 12:22:51,712 - INFO - Processed 38100000 reads so far
2011-05-20 12:23:04,166 - INFO - Processed 38200000 reads so far
2011-05-20 12:23:19,148 - INFO - Processed 38300000 reads so far
2011-05-20 12:23:32,693 - INFO - Processed 38400000 reads so far
2011-05-20 12:23:44,273 - INFO - Processed 38500000 reads so far
2011-05-20 12:23:56,767 - INFO - Processed 38600000 reads so far
2011-05-20 12:24:09,325 - INFO - Processed 38700000 reads so far
2011-05-20 12:24:20,717 - INFO - Processed 38800000 reads so far
2011-05-20 12:24:22,461 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16:42990045-63010045
2011-05-20 12:24:33,736 - INFO - Processed 38900000 reads so far
2011-05-20 12:24:45,535 - INFO - Processed 39000000 reads so far
2011-05-20 12:24:57,171 - INFO - Processed 39100000 reads so far
2011-05-20 12:25:08,830 - INFO - Processed 39200000 reads so far
2011-05-20 12:25:21,319 - INFO - Processed 39300000 reads so far
2011-05-20 12:25:34,316 - INFO - Processed 39400000 reads so far
2011-05-20 12:25:46,939 - INFO - Processed 39500000 reads so far
2011-05-20 12:25:58,889 - INFO - Processed 39600000 reads so far
2011-05-20 12:26:10,855 - INFO - Processed 39700000 reads so far
2011-05-20 12:26:21,915 - INFO - Processed 39800000 reads so far
2011-05-20 12:26:23,026 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16:62990056-83010056
2011-05-20 12:26:33,992 - INFO - Processed 39900000 reads so far
2011-05-20 12:26:48,050 - INFO - Processed 40000000 reads so far
2011-05-20 12:27:00,162 - INFO - Processed 40100000 reads so far
2011-05-20 12:27:12,328 - INFO - Processed 40200000 reads so far
2011-05-20 12:27:24,312 - INFO - Processed 40300000 reads so far
2011-05-20 12:27:35,961 - INFO - Processed 40400000 reads so far
2011-05-20 12:27:47,904 - INFO - Processed 40500000 reads so far
2011-05-20 12:27:59,965 - INFO - Processed 40600000 reads so far
2011-05-20 12:28:11,551 - INFO - Processed 40700000 reads so far
2011-05-20 12:28:17,802 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16:82990067-103010067
2011-05-20 12:28:22,689 - INFO - Processed 40800000 reads so far
2011-05-20 12:28:34,910 - INFO - Processed 40900000 reads so far
2011-05-20 12:28:46,365 - INFO - Processed 41000000 reads so far
2011-05-20 12:28:57,537 - INFO - Processed 41100000 reads so far
2011-05-20 12:29:11,549 - INFO - Processed 41200000 reads so far
2011-05-20 12:29:23,667 - INFO - Processed 41300000 reads so far
2011-05-20 12:29:35,814 - INFO - Processed 41400000 reads so far
2011-05-20 12:29:47,782 - INFO - Processed 41500000 reads so far
2011-05-20 12:29:56,801 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16_random:0-20010119
2011-05-20 12:29:56,835 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17:2989997-23009997
2011-05-20 12:30:00,957 - INFO - Processed 41600000 reads so far
2011-05-20 12:30:12,600 - INFO - Processed 41700000 reads so far
2011-05-20 12:30:24,564 - INFO - Processed 41800000 reads so far
2011-05-20 12:30:35,839 - INFO - Processed 41900000 reads so far
2011-05-20 12:30:47,595 - INFO - Processed 42000000 reads so far
2011-05-20 12:31:00,527 - INFO - Processed 42100000 reads so far
2011-05-20 12:31:11,477 - INFO - Processed 42200000 reads so far
2011-05-20 12:31:22,725 - INFO - Processed 42300000 reads so far
2011-05-20 12:31:35,890 - INFO - Processed 42400000 reads so far
2011-05-20 12:31:50,583 - INFO - Processed 42500000 reads so far
2011-05-20 12:32:03,927 - INFO - Processed 42600000 reads so far
2011-05-20 12:32:14,987 - INFO - Processed 42700000 reads so far
2011-05-20 12:32:15,172 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17:22990072-43010072
2011-05-20 12:32:29,894 - INFO - Processed 42800000 reads so far
2011-05-20 12:32:42,976 - INFO - Processed 42900000 reads so far
2011-05-20 12:32:55,517 - INFO - Processed 43000000 reads so far
2011-05-20 12:33:07,298 - INFO - Processed 43100000 reads so far
2011-05-20 12:33:19,294 - INFO - Processed 43200000 reads so far
2011-05-20 12:33:32,012 - INFO - Processed 43300000 reads so far
2011-05-20 12:33:44,749 - INFO - Processed 43400000 reads so far
2011-05-20 12:33:57,231 - INFO - Processed 43500000 reads so far
2011-05-20 12:34:09,962 - INFO - Processed 43600000 reads so far
2011-05-20 12:34:21,884 - INFO - Processed 43700000 reads so far
2011-05-20 12:34:32,190 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17:42990089-63010089
2011-05-20 12:34:41,568 - INFO - Processed 43800000 reads so far
2011-05-20 12:34:54,117 - INFO - Processed 43900000 reads so far
2011-05-20 12:35:06,537 - INFO - Processed 44000000 reads so far
2011-05-20 12:35:18,442 - INFO - Processed 44100000 reads so far
2011-05-20 12:35:30,141 - INFO - Processed 44200000 reads so far
2011-05-20 12:35:42,006 - INFO - Processed 44300000 reads so far
2011-05-20 12:35:54,095 - INFO - Processed 44400000 reads so far
2011-05-20 12:36:08,525 - INFO - Processed 44500000 reads so far
2011-05-20 12:36:21,731 - INFO - Processed 44600000 reads so far
2011-05-20 12:36:32,925 - INFO - Processed 44700000 reads so far
2011-05-20 12:36:43,128 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17:62990137-83010137
2011-05-20 12:36:47,149 - INFO - Processed 44800000 reads so far
2011-05-20 12:36:57,989 - INFO - Processed 44900000 reads so far
2011-05-20 12:37:09,930 - INFO - Processed 45000000 reads so far
2011-05-20 12:37:20,005 - INFO - Processed 45100000 reads so far
2011-05-20 12:37:32,441 - INFO - Processed 45200000 reads so far
2011-05-20 12:37:45,419 - INFO - Processed 45300000 reads so far
2011-05-20 12:37:57,690 - INFO - Processed 45400000 reads so far
2011-05-20 12:38:11,036 - INFO - Processed 45500000 reads so far
2011-05-20 12:38:23,381 - INFO - Processed 45600000 reads so far
2011-05-20 12:38:37,574 - INFO - Processed 45700000 reads so far
2011-05-20 12:38:50,723 - INFO - Processed 45800000 reads so far
2011-05-20 12:38:53,176 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17:82990265-103010265
2011-05-20 12:39:03,030 - INFO - Processed 45900000 reads so far
2011-05-20 12:39:15,805 - INFO - Processed 46000000 reads so far
2011-05-20 12:39:27,709 - INFO - Processed 46100000 reads so far
2011-05-20 12:39:41,469 - INFO - Processed 46200000 reads so far
2011-05-20 12:39:53,799 - INFO - Processed 46300000 reads so far
2011-05-20 12:40:07,448 - INFO - Processed 46400000 reads so far
2011-05-20 12:40:13,259 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17_random:0-20010010
2011-05-20 12:40:15,579 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr18:2990000-23010000
2011-05-20 12:40:21,452 - INFO - Processed 46500000 reads so far
2011-05-20 12:40:34,374 - INFO - Processed 46600000 reads so far
2011-05-20 12:40:47,070 - INFO - Processed 46700000 reads so far
2011-05-20 12:41:01,089 - INFO - Processed 46800000 reads so far
2011-05-20 12:41:13,670 - INFO - Processed 46900000 reads so far
2011-05-20 12:41:26,727 - INFO - Processed 47000000 reads so far
2011-05-20 12:41:39,764 - INFO - Processed 47100000 reads so far
2011-05-20 12:41:51,378 - INFO - Processed 47200000 reads so far
2011-05-20 12:42:03,757 - INFO - Processed 47300000 reads so far
2011-05-20 12:42:15,599 - INFO - Processed 47400000 reads so far
2011-05-20 12:42:29,144 - INFO - Processed 47500000 reads so far
2011-05-20 12:42:33,890 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr18:22990001-43010001
2011-05-20 12:42:40,975 - INFO - Processed 47600000 reads so far
2011-05-20 12:42:53,170 - INFO - Processed 47700000 reads so far
2011-05-20 12:43:05,782 - INFO - Processed 47800000 reads so far
2011-05-20 12:43:18,183 - INFO - Processed 47900000 reads so far
2011-05-20 12:43:30,467 - INFO - Processed 48000000 reads so far
2011-05-20 12:43:42,411 - INFO - Processed 48100000 reads so far
2011-05-20 12:43:54,721 - INFO - Processed 48200000 reads so far
2011-05-20 12:44:07,693 - INFO - Processed 48300000 reads so far
2011-05-20 12:44:19,784 - INFO - Processed 48400000 reads so far
2011-05-20 12:44:31,106 - INFO - Processed 48500000 reads so far
2011-05-20 12:44:41,440 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr18:42990003-63010003
2011-05-20 12:44:43,074 - INFO - Processed 48600000 reads so far
2011-05-20 12:44:55,641 - INFO - Processed 48700000 reads so far
2011-05-20 12:45:05,861 - INFO - Processed 48800000 reads so far
2011-05-20 12:45:17,829 - INFO - Processed 48900000 reads so far
2011-05-20 12:45:29,468 - INFO - Processed 49000000 reads so far
2011-05-20 12:45:42,185 - INFO - Processed 49100000 reads so far
2011-05-20 12:45:54,064 - INFO - Processed 49200000 reads so far
2011-05-20 12:46:05,502 - INFO - Processed 49300000 reads so far
2011-05-20 12:46:18,104 - INFO - Processed 49400000 reads so far
2011-05-20 12:46:28,857 - INFO - Processed 49500000 reads so far
2011-05-20 12:46:38,863 - INFO - Processed 49600000 reads so far
2011-05-20 12:46:41,141 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr18:62990008-83010008
2011-05-20 12:46:49,129 - INFO - Processed 49700000 reads so far
2011-05-20 12:47:01,218 - INFO - Processed 49800000 reads so far
2011-05-20 12:47:12,090 - INFO - Processed 49900000 reads so far
2011-05-20 12:47:24,364 - INFO - Processed 50000000 reads so far
2011-05-20 12:47:37,025 - INFO - Processed 50100000 reads so far
2011-05-20 12:47:48,583 - INFO - Processed 50200000 reads so far
2011-05-20 12:47:58,902 - INFO - Processed 50300000 reads so far
2011-05-20 12:48:07,405 - INFO - Processed 50400000 reads so far
2011-05-20 12:48:17,402 - INFO - Processed 50500000 reads so far
2011-05-20 12:48:28,449 - INFO - Processed 50600000 reads so far
2011-05-20 12:48:34,808 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr18:82990014-103010014
2011-05-20 12:48:36,898 - INFO - Processed 50700000 reads so far
2011-05-20 12:48:48,100 - INFO - Processed 50800000 reads so far
2011-05-20 12:48:59,397 - INFO - Processed 50900000 reads so far
2011-05-20 12:49:09,922 - INFO - Processed 51000000 reads so far
2011-05-20 12:49:15,003 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr19:2990065-23010065
2011-05-20 12:49:17,151 - INFO - Processed 51100000 reads so far
2011-05-20 12:49:24,713 - INFO - Processed 51200000 reads so far
2011-05-20 12:49:35,706 - INFO - Processed 51300000 reads so far
2011-05-20 12:49:49,054 - INFO - Processed 51400000 reads so far
2011-05-20 12:49:59,873 - INFO - Processed 51500000 reads so far
2011-05-20 12:50:10,402 - INFO - Processed 51600000 reads so far
2011-05-20 12:50:21,596 - INFO - Processed 51700000 reads so far
2011-05-20 12:50:31,402 - INFO - Processed 51800000 reads so far
2011-05-20 12:50:42,771 - INFO - Processed 51900000 reads so far
2011-05-20 12:50:54,170 - INFO - Processed 52000000 reads so far
2011-05-20 12:51:06,879 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr19:22990067-43010067
2011-05-20 12:51:07,049 - INFO - Processed 52100000 reads so far
2011-05-20 12:51:16,757 - INFO - Processed 52200000 reads so far
2011-05-20 12:51:27,422 - INFO - Processed 52300000 reads so far
2011-05-20 12:51:38,041 - INFO - Processed 52400000 reads so far
2011-05-20 12:51:50,101 - INFO - Processed 52500000 reads so far
2011-05-20 12:52:01,435 - INFO - Processed 52600000 reads so far
2011-05-20 12:52:12,765 - INFO - Processed 52700000 reads so far
2011-05-20 12:52:22,069 - INFO - Processed 52800000 reads so far
2011-05-20 12:52:30,332 - INFO - Processed 52900000 reads so far
2011-05-20 12:52:38,161 - INFO - Processed 53000000 reads so far
2011-05-20 12:52:48,474 - INFO - Processed 53100000 reads so far
2011-05-20 12:52:53,192 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr19:42990093-63010093
2011-05-20 12:52:58,572 - INFO - Processed 53200000 reads so far
2011-05-20 12:53:05,507 - INFO - Processed 53300000 reads so far
2011-05-20 12:53:15,703 - INFO - Processed 53400000 reads so far
2011-05-20 12:53:25,306 - INFO - Processed 53500000 reads so far
2011-05-20 12:53:34,317 - INFO - Processed 53600000 reads so far
2011-05-20 12:53:43,234 - INFO - Processed 53700000 reads so far
2011-05-20 12:53:53,970 - INFO - Processed 53800000 reads so far
2011-05-20 12:54:04,675 - INFO - Processed 53900000 reads so far
2011-05-20 12:54:15,234 - INFO - Processed 54000000 reads so far
2011-05-20 12:54:26,232 - INFO - Processed 54100000 reads so far
2011-05-20 12:54:27,919 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:2989964-23009964
2011-05-20 12:54:36,388 - INFO - Processed 54200000 reads so far
2011-05-20 12:54:45,908 - INFO - Processed 54300000 reads so far
2011-05-20 12:54:56,534 - INFO - Processed 54400000 reads so far
2011-05-20 12:55:06,039 - INFO - Processed 54500000 reads so far
2011-05-20 12:55:13,450 - INFO - Processed 54600000 reads so far
2011-05-20 12:55:24,149 - INFO - Processed 54700000 reads so far
2011-05-20 12:55:34,775 - INFO - Processed 54800000 reads so far
2011-05-20 12:55:44,983 - INFO - Processed 54900000 reads so far
2011-05-20 12:55:53,317 - INFO - Processed 55000000 reads so far
2011-05-20 12:56:03,987 - INFO - Processed 55100000 reads so far
2011-05-20 12:56:07,011 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:22989981-43009981
2011-05-20 12:56:14,740 - INFO - Processed 55200000 reads so far
2011-05-20 12:56:24,565 - INFO - Processed 55300000 reads so far
2011-05-20 12:56:32,362 - INFO - Processed 55400000 reads so far
2011-05-20 12:56:43,014 - INFO - Processed 55500000 reads so far
2011-05-20 12:56:53,657 - INFO - Processed 55600000 reads so far
2011-05-20 12:57:04,397 - INFO - Processed 55700000 reads so far
2011-05-20 12:57:11,886 - INFO - Processed 55800000 reads so far
2011-05-20 12:57:18,833 - INFO - Processed 55900000 reads so far
2011-05-20 12:57:28,561 - INFO - Processed 56000000 reads so far
2011-05-20 12:57:39,825 - INFO - Processed 56100000 reads so far
2011-05-20 12:57:46,282 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:42990061-63010061
2011-05-20 12:57:51,042 - INFO - Processed 56200000 reads so far
2011-05-20 12:58:03,494 - INFO - Processed 56300000 reads so far
2011-05-20 12:58:14,506 - INFO - Processed 56400000 reads so far
2011-05-20 12:58:38,653 - INFO - Processed 56500000 reads so far
2011-05-20 12:58:51,623 - INFO - Processed 56600000 reads so far
2011-05-20 12:59:02,904 - INFO - Processed 56700000 reads so far
2011-05-20 12:59:14,190 - INFO - Processed 56800000 reads so far
2011-05-20 12:59:25,820 - INFO - Processed 56900000 reads so far
2011-05-20 12:59:37,324 - INFO - Processed 57000000 reads so far
2011-05-20 12:59:48,769 - INFO - Processed 57100000 reads so far
2011-05-20 12:59:57,496 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:62990078-83010078
2011-05-20 13:00:00,175 - INFO - Processed 57200000 reads so far
2011-05-20 13:00:12,966 - INFO - Processed 57300000 reads so far
2011-05-20 13:00:24,453 - INFO - Processed 57400000 reads so far
2011-05-20 13:00:37,711 - INFO - Processed 57500000 reads so far
2011-05-20 13:00:49,377 - INFO - Processed 57600000 reads so far
2011-05-20 13:01:00,746 - INFO - Processed 57700000 reads so far
2011-05-20 13:01:12,934 - INFO - Processed 57800000 reads so far
2011-05-20 13:01:24,841 - INFO - Processed 57900000 reads so far
2011-05-20 13:01:36,514 - INFO - Processed 58000000 reads so far
2011-05-20 13:01:48,328 - INFO - Processed 58100000 reads so far
2011-05-20 13:02:00,823 - INFO - Processed 58200000 reads so far
2011-05-20 13:02:01,336 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:82990079-103010079
2011-05-20 13:02:12,257 - INFO - Processed 58300000 reads so far
2011-05-20 13:02:22,724 - INFO - Processed 58400000 reads so far
2011-05-20 13:02:33,354 - INFO - Processed 58500000 reads so far
2011-05-20 13:02:44,790 - INFO - Processed 58600000 reads so far
2011-05-20 13:02:56,277 - INFO - Processed 58700000 reads so far
2011-05-20 13:03:07,706 - INFO - Processed 58800000 reads so far
2011-05-20 13:03:19,598 - INFO - Processed 58900000 reads so far
2011-05-20 13:03:31,443 - INFO - Processed 59000000 reads so far
2011-05-20 13:03:42,796 - INFO - Processed 59100000 reads so far
2011-05-20 13:03:54,090 - INFO - Processed 59200000 reads so far
2011-05-20 13:04:04,077 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:102990187-123010187
2011-05-20 13:04:05,551 - INFO - Processed 59300000 reads so far
2011-05-20 13:04:16,852 - INFO - Processed 59400000 reads so far
2011-05-20 13:04:28,124 - INFO - Processed 59500000 reads so far
2011-05-20 13:04:37,592 - INFO - Processed 59600000 reads so far
2011-05-20 13:04:50,023 - INFO - Processed 59700000 reads so far
2011-05-20 13:05:02,079 - INFO - Processed 59800000 reads so far
2011-05-20 13:05:14,071 - INFO - Processed 59900000 reads so far
2011-05-20 13:05:25,473 - INFO - Processed 60000000 reads so far
2011-05-20 13:05:36,146 - INFO - Processed 60100000 reads so far
2011-05-20 13:05:48,681 - INFO - Processed 60200000 reads so far
2011-05-20 13:05:56,903 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:122990198-143010198
2011-05-20 13:05:57,649 - INFO - Processed 60300000 reads so far
2011-05-20 13:06:04,480 - INFO - Processed 60400000 reads so far
2011-05-20 13:06:12,214 - INFO - Processed 60500000 reads so far
2011-05-20 13:06:22,912 - INFO - Processed 60600000 reads so far
2011-05-20 13:06:34,338 - INFO - Processed 60700000 reads so far
2011-05-20 13:06:44,405 - INFO - Processed 60800000 reads so far
2011-05-20 13:06:52,640 - INFO - Processed 60900000 reads so far
2011-05-20 13:07:02,607 - INFO - Processed 61000000 reads so far
2011-05-20 13:07:13,748 - INFO - Processed 61100000 reads so far
2011-05-20 13:07:24,711 - INFO - Processed 61200000 reads so far
2011-05-20 13:07:36,057 - INFO - Processed 61300000 reads so far
2011-05-20 13:07:39,779 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:142990204-163010204
2011-05-20 13:07:48,562 - INFO - Processed 61400000 reads so far
2011-05-20 13:07:59,526 - INFO - Processed 61500000 reads so far
2011-05-20 13:08:12,843 - INFO - Processed 61600000 reads so far
2011-05-20 13:08:24,375 - INFO - Processed 61700000 reads so far
2011-05-20 13:08:35,678 - INFO - Processed 61800000 reads so far
2011-05-20 13:08:47,522 - INFO - Processed 61900000 reads so far
2011-05-20 13:08:58,917 - INFO - Processed 62000000 reads so far
2011-05-20 13:09:10,378 - INFO - Processed 62100000 reads so far
2011-05-20 13:09:21,470 - INFO - Processed 62200000 reads so far
2011-05-20 13:09:28,312 - INFO - Processed 62300000 reads so far
2011-05-20 13:09:29,959 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:162990226-183010226
2011-05-20 13:09:52,378 - INFO - Processed 62400000 reads so far
2011-05-20 13:10:06,190 - INFO - Processed 62500000 reads so far
2011-05-20 13:10:21,187 - INFO - Processed 62600000 reads so far
2011-05-20 13:10:38,536 - INFO - Processed 62700000 reads so far
2011-05-20 13:10:48,599 - INFO - Processed 62800000 reads so far
2011-05-20 13:11:17,781 - INFO - Processed 62900000 reads so far
2011-05-20 13:11:29,682 - INFO - Processed 63000000 reads so far
2011-05-20 13:11:50,267 - INFO - Processed 63100000 reads so far
2011-05-20 13:12:05,474 - INFO - Processed 63200000 reads so far
2011-05-20 13:12:15,994 - INFO - Processed 63300000 reads so far
2011-05-20 13:12:25,980 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:182990227-203010227
2011-05-20 13:12:27,748 - INFO - Processed 63400000 reads so far
2011-05-20 13:12:50,629 - INFO - Processed 63500000 reads so far
2011-05-20 13:13:01,333 - INFO - Processed 63600000 reads so far
2011-05-20 13:13:12,275 - INFO - Processed 63700000 reads so far
2011-05-20 13:13:36,308 - INFO - Processed 63800000 reads so far
2011-05-20 13:13:49,438 - INFO - Processed 63900000 reads so far
2011-05-20 13:14:12,785 - INFO - Processed 64000000 reads so far
2011-05-20 13:14:22,446 - INFO - Processed 64100000 reads so far
2011-05-20 13:14:26,311 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1_random:0-20010000
2011-05-20 13:14:41,634 - INFO - Processed 64200000 reads so far
2011-05-20 13:14:51,798 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:2990008-23010008
2011-05-20 13:14:53,691 - INFO - Processed 64300000 reads so far
2011-05-20 13:15:03,237 - INFO - Processed 64400000 reads so far
2011-05-20 13:15:23,937 - INFO - Processed 64500000 reads so far
2011-05-20 13:15:31,603 - INFO - Processed 64600000 reads so far
2011-05-20 13:15:40,236 - INFO - Processed 64700000 reads so far
2011-05-20 13:15:48,567 - INFO - Processed 64800000 reads so far
2011-05-20 13:15:55,371 - INFO - Processed 64900000 reads so far
2011-05-20 13:16:05,728 - INFO - Processed 65000000 reads so far
2011-05-20 13:16:12,501 - INFO - Processed 65100000 reads so far
2011-05-20 13:16:19,615 - INFO - Processed 65200000 reads so far
2011-05-20 13:16:26,771 - INFO - Processed 65300000 reads so far
2011-05-20 13:16:32,533 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:22990021-43010021
2011-05-20 13:16:38,891 - INFO - Processed 65400000 reads so far
2011-05-20 13:16:47,674 - INFO - Processed 65500000 reads so far
2011-05-20 13:16:54,739 - INFO - Processed 65600000 reads so far
2011-05-20 13:17:05,332 - INFO - Processed 65700000 reads so far
2011-05-20 13:17:13,000 - INFO - Processed 65800000 reads so far
2011-05-20 13:17:24,469 - INFO - Processed 65900000 reads so far
2011-05-20 13:17:38,148 - INFO - Processed 66000000 reads so far
2011-05-20 13:17:49,579 - INFO - Processed 66100000 reads so far
2011-05-20 13:17:57,464 - INFO - Processed 66200000 reads so far
2011-05-20 13:18:07,676 - INFO - Processed 66300000 reads so far
2011-05-20 13:18:14,886 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:42990032-63010032
2011-05-20 13:18:18,134 - INFO - Processed 66400000 reads so far
2011-05-20 13:18:27,920 - INFO - Processed 66500000 reads so far
2011-05-20 13:18:38,970 - INFO - Processed 66600000 reads so far
2011-05-20 13:18:50,192 - INFO - Processed 66700000 reads so far
2011-05-20 13:19:00,253 - INFO - Processed 66800000 reads so far
2011-05-20 13:19:11,936 - INFO - Processed 66900000 reads so far
2011-05-20 13:19:22,597 - INFO - Processed 67000000 reads so far
2011-05-20 13:19:29,429 - INFO - Processed 67100000 reads so far
2011-05-20 13:19:37,983 - INFO - Processed 67200000 reads so far
2011-05-20 13:19:48,808 - INFO - Processed 67300000 reads so far
2011-05-20 13:19:59,334 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:62990089-83010089
2011-05-20 13:20:01,299 - INFO - Processed 67400000 reads so far
2011-05-20 13:20:10,423 - INFO - Processed 67500000 reads so far
2011-05-20 13:20:19,364 - INFO - Processed 67600000 reads so far
2011-05-20 13:20:29,140 - INFO - Processed 67700000 reads so far
2011-05-20 13:20:39,507 - INFO - Processed 67800000 reads so far
2011-05-20 13:20:47,693 - INFO - Processed 67900000 reads so far
2011-05-20 13:20:56,403 - INFO - Processed 68000000 reads so far
2011-05-20 13:21:05,323 - INFO - Processed 68100000 reads so far
2011-05-20 13:21:13,198 - INFO - Processed 68200000 reads so far
2011-05-20 13:21:21,844 - INFO - Processed 68300000 reads so far
2011-05-20 13:21:27,816 - INFO - Processed 68400000 reads so far
2011-05-20 13:21:36,967 - INFO - Processed 68500000 reads so far
2011-05-20 13:21:45,220 - INFO - Processed 68600000 reads so far
2011-05-20 13:21:53,542 - INFO - Processed 68700000 reads so far
2011-05-20 13:22:04,191 - INFO - Processed 68800000 reads so far
2011-05-20 13:22:06,361 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:82990097-103010097
2011-05-20 13:22:12,447 - INFO - Processed 68900000 reads so far
2011-05-20 13:22:22,740 - INFO - Processed 69000000 reads so far
2011-05-20 13:22:33,344 - INFO - Processed 69100000 reads so far
2011-05-20 13:22:44,215 - INFO - Processed 69200000 reads so far
2011-05-20 13:22:58,566 - INFO - Processed 69300000 reads so far
2011-05-20 13:23:09,410 - INFO - Processed 69400000 reads so far
2011-05-20 13:23:21,282 - INFO - Processed 69500000 reads so far
2011-05-20 13:23:29,910 - INFO - Processed 69600000 reads so far
2011-05-20 13:23:38,824 - INFO - Processed 69700000 reads so far
2011-05-20 13:23:46,791 - INFO - Processed 69800000 reads so far
2011-05-20 13:23:54,390 - INFO - Processed 69900000 reads so far
2011-05-20 13:24:01,427 - INFO - Processed 70000000 reads so far
2011-05-20 13:24:07,937 - INFO - Processed 70100000 reads so far
2011-05-20 13:24:15,223 - INFO - Processed 70200000 reads so far
2011-05-20 13:24:22,942 - INFO - Processed 70300000 reads so far
2011-05-20 13:24:32,477 - INFO - Processed 70400000 reads so far
2011-05-20 13:24:41,075 - INFO - Processed 70500000 reads so far
2011-05-20 13:24:49,102 - INFO - Processed 70600000 reads so far
2011-05-20 13:24:55,631 - INFO - Processed 70700000 reads so far
2011-05-20 13:25:06,282 - INFO - Processed 70800000 reads so far
2011-05-20 13:25:17,111 - INFO - Processed 70900000 reads so far
2011-05-20 13:25:27,820 - INFO - Processed 71000000 reads so far
2011-05-20 13:25:34,821 - INFO - Processed 71100000 reads so far
2011-05-20 13:25:44,081 - INFO - Processed 71200000 reads so far
2011-05-20 13:25:53,488 - INFO - Processed 71300000 reads so far
2011-05-20 13:26:02,835 - INFO - Processed 71400000 reads so far
2011-05-20 13:26:12,404 - INFO - Processed 71500000 reads so far
2011-05-20 13:26:21,480 - INFO - Processed 71600000 reads so far
2011-05-20 13:26:29,801 - INFO - Processed 71700000 reads so far
2011-05-20 13:26:37,497 - INFO - Processed 71800000 reads so far
2011-05-20 13:26:45,271 - INFO - Processed 71900000 reads so far
2011-05-20 13:26:53,819 - INFO - Processed 72000000 reads so far
2011-05-20 13:27:02,849 - INFO - Processed 72100000 reads so far
2011-05-20 13:27:12,049 - INFO - Processed 72200000 reads so far
2011-05-20 13:27:20,050 - INFO - Processed 72300000 reads so far
2011-05-20 13:27:27,266 - INFO - Processed 72400000 reads so far
2011-05-20 13:27:35,938 - INFO - Processed 72500000 reads so far
2011-05-20 13:27:44,316 - INFO - Processed 72600000 reads so far
2011-05-20 13:27:52,681 - INFO - Processed 72700000 reads so far
2011-05-20 13:28:00,852 - INFO - Processed 72800000 reads so far
2011-05-20 13:28:07,408 - INFO - Processed 72900000 reads so far
2011-05-20 13:28:15,162 - INFO - Processed 73000000 reads so far
2011-05-20 13:28:23,563 - INFO - Processed 73100000 reads so far
2011-05-20 13:28:31,665 - INFO - Processed 73200000 reads so far
2011-05-20 13:28:39,682 - INFO - Processed 73300000 reads so far
2011-05-20 13:28:47,389 - INFO - Processed 73400000 reads so far
2011-05-20 13:28:54,955 - INFO - Processed 73500000 reads so far
2011-05-20 13:29:04,451 - INFO - Processed 73600000 reads so far
2011-05-20 13:29:12,880 - INFO - Processed 73700000 reads so far
2011-05-20 13:29:22,206 - INFO - Processed 73800000 reads so far
2011-05-20 13:29:31,796 - INFO - Processed 73900000 reads so far
2011-05-20 13:29:41,240 - INFO - Processed 74000000 reads so far
2011-05-20 13:29:50,538 - INFO - Processed 74100000 reads so far
2011-05-20 13:29:59,914 - INFO - Processed 74200000 reads so far
2011-05-20 13:30:09,452 - INFO - Processed 74300000 reads so far
2011-05-20 13:30:18,636 - INFO - Processed 74400000 reads so far
2011-05-20 13:30:27,642 - INFO - Processed 74500000 reads so far
2011-05-20 13:30:36,852 - INFO - Processed 74600000 reads so far
2011-05-20 13:30:46,312 - INFO - Processed 74700000 reads so far
2011-05-20 13:30:55,046 - INFO - Processed 74800000 reads so far
2011-05-20 13:31:04,627 - INFO - Processed 74900000 reads so far
2011-05-20 13:31:13,983 - INFO - Processed 75000000 reads so far
2011-05-20 13:31:22,584 - INFO - Processed 75100000 reads so far
2011-05-20 13:31:31,985 - INFO - Processed 75200000 reads so far
2011-05-20 13:31:38,663 - INFO - Processed 75300000 reads so far
2011-05-20 13:31:48,456 - INFO - Processed 75400000 reads so far
2011-05-20 13:31:57,747 - INFO - Processed 75500000 reads so far
2011-05-20 13:32:08,153 - INFO - Processed 75600000 reads so far
2011-05-20 13:32:17,376 - INFO - Processed 75700000 reads so far
2011-05-20 13:32:26,343 - INFO - Processed 75800000 reads so far
2011-05-20 13:32:36,894 - INFO - Processed 75900000 reads so far
2011-05-20 13:32:46,041 - INFO - Processed 76000000 reads so far
2011-05-20 13:32:55,466 - INFO - Processed 76100000 reads so far
2011-05-20 13:33:04,386 - INFO - Processed 76200000 reads so far
2011-05-20 13:33:13,977 - INFO - Processed 76300000 reads so far
2011-05-20 13:33:23,403 - INFO - Processed 76400000 reads so far
2011-05-20 13:33:32,475 - INFO - Processed 76500000 reads so far
2011-05-20 13:33:41,102 - INFO - Processed 76600000 reads so far
2011-05-20 13:33:50,163 - INFO - Processed 76700000 reads so far
2011-05-20 13:33:59,852 - INFO - Processed 76800000 reads so far
2011-05-20 13:34:09,415 - INFO - Processed 76900000 reads so far
2011-05-20 13:34:18,776 - INFO - Processed 77000000 reads so far
2011-05-20 13:34:27,978 - INFO - Processed 77100000 reads so far
2011-05-20 13:34:36,682 - INFO - Processed 77200000 reads so far
2011-05-20 13:34:46,975 - INFO - Processed 77300000 reads so far
2011-05-20 13:34:56,345 - INFO - Processed 77400000 reads so far
2011-05-20 13:35:07,116 - INFO - Processed 77500000 reads so far
2011-05-20 13:35:14,625 - INFO - Processed 77600000 reads so far
2011-05-20 13:35:23,679 - INFO - Processed 77700000 reads so far
2011-05-20 13:35:32,453 - INFO - Processed 77800000 reads so far
2011-05-20 13:35:41,763 - INFO - Processed 77900000 reads so far
2011-05-20 13:35:51,654 - INFO - Processed 78000000 reads so far
2011-05-20 13:36:00,767 - INFO - Processed 78100000 reads so far
2011-05-20 13:36:10,123 - INFO - Processed 78200000 reads so far
2011-05-20 13:36:20,276 - INFO - Processed 78300000 reads so far
2011-05-20 13:36:29,681 - INFO - Processed 78400000 reads so far
2011-05-20 13:36:38,180 - INFO - Processed 78500000 reads so far
2011-05-20 13:36:50,547 - INFO - Processed 78600000 reads so far
2011-05-20 13:37:01,301 - INFO - Processed 78700000 reads so far
2011-05-20 13:37:10,618 - INFO - Processed 78800000 reads so far
2011-05-20 13:37:19,576 - INFO - Processed 78900000 reads so far
2011-05-20 13:37:29,814 - INFO - Processed 79000000 reads so far
2011-05-20 13:37:39,808 - INFO - Processed 79100000 reads so far
2011-05-20 13:37:48,812 - INFO - Processed 79200000 reads so far
2011-05-20 13:37:57,940 - INFO - Processed 79300000 reads so far
2011-05-20 13:38:08,742 - INFO - Processed 79400000 reads so far
2011-05-20 13:38:16,687 - INFO - Processed 79500000 reads so far
2011-05-20 13:38:23,261 - INFO - Processed 79600000 reads so far
2011-05-20 13:38:32,213 - INFO - Processed 79700000 reads so far
2011-05-20 13:38:40,549 - INFO - Processed 79800000 reads so far
2011-05-20 13:38:42,729 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:102990106-123010106
2011-05-20 13:38:50,718 - INFO - Processed 79900000 reads so far
2011-05-20 13:39:01,809 - INFO - Processed 80000000 reads so far
2011-05-20 13:39:10,418 - INFO - Processed 80100000 reads so far
2011-05-20 13:39:20,456 - INFO - Processed 80200000 reads so far
2011-05-20 13:39:31,489 - INFO - Processed 80300000 reads so far
2011-05-20 13:39:42,491 - INFO - Processed 80400000 reads so far
2011-05-20 13:39:52,968 - INFO - Processed 80500000 reads so far
2011-05-20 13:40:02,461 - INFO - Processed 80600000 reads so far
2011-05-20 13:40:12,436 - INFO - Processed 80700000 reads so far
2011-05-20 13:40:24,589 - INFO - Processed 80800000 reads so far
2011-05-20 13:40:28,568 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:122990174-143010174
2011-05-20 13:40:36,306 - INFO - Processed 80900000 reads so far
2011-05-20 13:40:48,305 - INFO - Processed 81000000 reads so far
2011-05-20 13:40:58,752 - INFO - Processed 81100000 reads so far
2011-05-20 13:41:10,036 - INFO - Processed 81200000 reads so far
2011-05-20 13:41:19,488 - INFO - Processed 81300000 reads so far
2011-05-20 13:41:29,108 - INFO - Processed 81400000 reads so far
2011-05-20 13:41:38,727 - INFO - Processed 81500000 reads so far
2011-05-20 13:41:50,487 - INFO - Processed 81600000 reads so far
2011-05-20 13:42:02,385 - INFO - Processed 81700000 reads so far
2011-05-20 13:42:14,596 - INFO - Processed 81800000 reads so far
2011-05-20 13:42:24,722 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:142990179-163010179
2011-05-20 13:42:25,845 - INFO - Processed 81900000 reads so far
2011-05-20 13:42:37,476 - INFO - Processed 82000000 reads so far
2011-05-20 13:42:47,426 - INFO - Processed 82100000 reads so far
2011-05-20 13:42:57,057 - INFO - Processed 82200000 reads so far
2011-05-20 13:43:04,885 - INFO - Processed 82300000 reads so far
2011-05-20 13:43:15,197 - INFO - Processed 82400000 reads so far
2011-05-20 13:43:26,651 - INFO - Processed 82500000 reads so far
2011-05-20 13:43:36,643 - INFO - Processed 82600000 reads so far
2011-05-20 13:43:47,143 - INFO - Processed 82700000 reads so far
2011-05-20 13:43:58,153 - INFO - Processed 82800000 reads so far
2011-05-20 13:44:08,463 - INFO - Processed 82900000 reads so far
2011-05-20 13:44:14,382 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:162990183-183010183
2011-05-20 13:44:18,914 - INFO - Processed 83000000 reads so far
2011-05-20 13:44:30,164 - INFO - Processed 83100000 reads so far
2011-05-20 13:44:41,827 - INFO - Processed 83200000 reads so far
2011-05-20 13:44:51,645 - INFO - Processed 83300000 reads so far
2011-05-20 13:45:01,988 - INFO - Processed 83400000 reads so far
2011-05-20 13:45:11,225 - INFO - Processed 83500000 reads so far
2011-05-20 13:45:21,446 - INFO - Processed 83600000 reads so far
2011-05-20 13:45:33,024 - INFO - Processed 83700000 reads so far
2011-05-20 13:45:45,539 - INFO - Processed 83800000 reads so far
2011-05-20 13:45:55,687 - INFO - Processed 83900000 reads so far
2011-05-20 13:46:04,667 - INFO - Processed 84000000 reads so far
2011-05-20 13:46:04,967 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:2989970-23009970
2011-05-20 13:46:16,663 - INFO - Processed 84100000 reads so far
2011-05-20 13:46:26,050 - INFO - Processed 84200000 reads so far
2011-05-20 13:46:35,613 - INFO - Processed 84300000 reads so far
2011-05-20 13:46:45,107 - INFO - Processed 84400000 reads so far
2011-05-20 13:46:54,554 - INFO - Processed 84500000 reads so far
2011-05-20 13:47:04,639 - INFO - Processed 84600000 reads so far
2011-05-20 13:47:13,903 - INFO - Processed 84700000 reads so far
2011-05-20 13:47:22,617 - INFO - Processed 84800000 reads so far
2011-05-20 13:47:30,860 - INFO - Processed 84900000 reads so far
2011-05-20 13:47:39,318 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:22989978-43009978
2011-05-20 13:47:39,504 - INFO - Processed 85000000 reads so far
2011-05-20 13:47:46,673 - INFO - Processed 85100000 reads so far
2011-05-20 13:47:57,178 - INFO - Processed 85200000 reads so far
2011-05-20 13:48:05,646 - INFO - Processed 85300000 reads so far
2011-05-20 13:48:16,051 - INFO - Processed 85400000 reads so far
2011-05-20 13:48:26,964 - INFO - Processed 85500000 reads so far
2011-05-20 13:48:35,054 - INFO - Processed 85600000 reads so far
2011-05-20 13:48:41,849 - INFO - Processed 85700000 reads so far
2011-05-20 13:48:48,742 - INFO - Processed 85800000 reads so far
2011-05-20 13:48:55,510 - INFO - Processed 85900000 reads so far
2011-05-20 13:49:02,888 - INFO - Processed 86000000 reads so far
2011-05-20 13:49:05,281 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:42989993-63009993
2011-05-20 13:49:09,788 - INFO - Processed 86100000 reads so far
2011-05-20 13:49:16,641 - INFO - Processed 86200000 reads so far
2011-05-20 13:49:23,520 - INFO - Processed 86300000 reads so far
2011-05-20 13:49:30,440 - INFO - Processed 86400000 reads so far
2011-05-20 13:49:37,669 - INFO - Processed 86500000 reads so far
2011-05-20 13:49:48,609 - INFO - Processed 86600000 reads so far
2011-05-20 13:49:59,406 - INFO - Processed 86700000 reads so far
2011-05-20 13:50:10,351 - INFO - Processed 86800000 reads so far
2011-05-20 13:50:21,249 - INFO - Processed 86900000 reads so far
2011-05-20 13:50:29,284 - INFO - Processed 87000000 reads so far
2011-05-20 13:50:31,039 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:62990012-83010012
2011-05-20 13:50:36,135 - INFO - Processed 87100000 reads so far
2011-05-20 13:50:43,319 - INFO - Processed 87200000 reads so far
2011-05-20 13:50:50,267 - INFO - Processed 87300000 reads so far
2011-05-20 13:50:57,078 - INFO - Processed 87400000 reads so far
2011-05-20 13:51:04,085 - INFO - Processed 87500000 reads so far
2011-05-20 13:51:11,952 - INFO - Processed 87600000 reads so far
2011-05-20 13:51:18,783 - INFO - Processed 87700000 reads so far
2011-05-20 13:51:25,606 - INFO - Processed 87800000 reads so far
2011-05-20 13:51:32,682 - INFO - Processed 87900000 reads so far
2011-05-20 13:51:39,578 - INFO - Processed 88000000 reads so far
2011-05-20 13:51:41,180 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:82990029-103010029
2011-05-20 13:51:46,986 - INFO - Processed 88100000 reads so far
2011-05-20 13:51:54,053 - INFO - Processed 88200000 reads so far
2011-05-20 13:52:01,164 - INFO - Processed 88300000 reads so far
2011-05-20 13:52:08,648 - INFO - Processed 88400000 reads so far
2011-05-20 13:52:15,443 - INFO - Processed 88500000 reads so far
2011-05-20 13:52:22,375 - INFO - Processed 88600000 reads so far
2011-05-20 13:52:31,248 - INFO - Processed 88700000 reads so far
2011-05-20 13:52:38,124 - INFO - Processed 88800000 reads so far
2011-05-20 13:52:44,934 - INFO - Processed 88900000 reads so far
2011-05-20 13:52:53,285 - INFO - Processed 89000000 reads so far
2011-05-20 13:52:57,928 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:102990068-123010068
2011-05-20 13:53:01,585 - INFO - Processed 89100000 reads so far
2011-05-20 13:53:11,154 - INFO - Processed 89200000 reads so far
2011-05-20 13:53:18,185 - INFO - Processed 89300000 reads so far
2011-05-20 13:53:25,122 - INFO - Processed 89400000 reads so far
2011-05-20 13:53:37,187 - INFO - Processed 89500000 reads so far
2011-05-20 13:53:45,625 - INFO - Processed 89600000 reads so far
2011-05-20 13:53:54,268 - INFO - Processed 89700000 reads so far
2011-05-20 13:54:01,289 - INFO - Processed 89800000 reads so far
2011-05-20 13:54:08,484 - INFO - Processed 89900000 reads so far
2011-05-20 13:54:15,255 - INFO - Processed 90000000 reads so far
2011-05-20 13:54:21,127 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:122990078-143010078
2011-05-20 13:54:22,340 - INFO - Processed 90100000 reads so far
2011-05-20 13:54:29,458 - INFO - Processed 90200000 reads so far
2011-05-20 13:54:36,413 - INFO - Processed 90300000 reads so far
2011-05-20 13:54:43,200 - INFO - Processed 90400000 reads so far
2011-05-20 13:54:50,381 - INFO - Processed 90500000 reads so far
2011-05-20 13:54:57,286 - INFO - Processed 90600000 reads so far
2011-05-20 13:55:06,627 - INFO - Processed 90700000 reads so far
2011-05-20 13:55:14,322 - INFO - Processed 90800000 reads so far
2011-05-20 13:55:22,368 - INFO - Processed 90900000 reads so far
2011-05-20 13:55:29,182 - INFO - Processed 91000000 reads so far
2011-05-20 13:55:38,401 - INFO - Processed 91100000 reads so far
2011-05-20 13:55:38,799 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:142990085-163010085
2011-05-20 13:55:46,241 - INFO - Processed 91200000 reads so far
2011-05-20 13:55:53,107 - INFO - Processed 91300000 reads so far
2011-05-20 13:55:59,864 - INFO - Processed 91400000 reads so far
2011-05-20 13:56:07,932 - INFO - Processed 91500000 reads so far
2011-05-20 13:56:16,885 - INFO - Processed 91600000 reads so far
2011-05-20 13:56:23,660 - INFO - Processed 91700000 reads so far
2011-05-20 13:56:32,840 - INFO - Processed 91800000 reads so far
2011-05-20 13:56:39,971 - INFO - Processed 91900000 reads so far
2011-05-20 13:56:45,816 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3_random:0-20010013
2011-05-20 13:56:45,895 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:2989980-23009980
2011-05-20 13:56:46,746 - INFO - Processed 92000000 reads so far
2011-05-20 13:56:53,455 - INFO - Processed 92100000 reads so far
2011-05-20 13:57:02,757 - INFO - Processed 92200000 reads so far
2011-05-20 13:57:09,515 - INFO - Processed 92300000 reads so far
2011-05-20 13:57:16,431 - INFO - Processed 92400000 reads so far
2011-05-20 13:57:24,294 - INFO - Processed 92500000 reads so far
2011-05-20 13:57:32,212 - INFO - Processed 92600000 reads so far
2011-05-20 13:57:42,267 - INFO - Processed 92700000 reads so far
2011-05-20 13:57:51,428 - INFO - Processed 92800000 reads so far
2011-05-20 13:58:03,320 - INFO - Processed 92900000 reads so far
2011-05-20 13:58:12,420 - INFO - Processed 93000000 reads so far
2011-05-20 13:58:14,902 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:22990017-43010017
2011-05-20 13:58:20,323 - INFO - Processed 93100000 reads so far
2011-05-20 13:58:28,048 - INFO - Processed 93200000 reads so far
2011-05-20 13:58:36,523 - INFO - Processed 93300000 reads so far
2011-05-20 13:58:43,826 - INFO - Processed 93400000 reads so far
2011-05-20 13:58:50,664 - INFO - Processed 93500000 reads so far
2011-05-20 13:58:58,950 - INFO - Processed 93600000 reads so far
2011-05-20 13:59:06,975 - INFO - Processed 93700000 reads so far
2011-05-20 13:59:16,223 - INFO - Processed 93800000 reads so far
2011-05-20 13:59:23,772 - INFO - Processed 93900000 reads so far
2011-05-20 13:59:32,356 - INFO - Processed 94000000 reads so far
2011-05-20 13:59:35,622 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:42990045-63010045
2011-05-20 13:59:40,756 - INFO - Processed 94100000 reads so far
2011-05-20 13:59:48,499 - INFO - Processed 94200000 reads so far
2011-05-20 13:59:59,057 - INFO - Processed 94300000 reads so far
2011-05-20 14:00:05,885 - INFO - Processed 94400000 reads so far
2011-05-20 14:00:13,755 - INFO - Processed 94500000 reads so far
2011-05-20 14:00:20,909 - INFO - Processed 94600000 reads so far
2011-05-20 14:00:29,894 - INFO - Processed 94700000 reads so far
2011-05-20 14:00:37,915 - INFO - Processed 94800000 reads so far
2011-05-20 14:00:45,777 - INFO - Processed 94900000 reads so far
2011-05-20 14:00:52,975 - INFO - Processed 95000000 reads so far
2011-05-20 14:00:57,111 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:62990053-83010053
2011-05-20 14:01:01,583 - INFO - Processed 95100000 reads so far
2011-05-20 14:01:10,229 - INFO - Processed 95200000 reads so far
2011-05-20 14:01:19,041 - INFO - Processed 95300000 reads so far
2011-05-20 14:01:26,374 - INFO - Processed 95400000 reads so far
2011-05-20 14:01:34,045 - INFO - Processed 95500000 reads so far
2011-05-20 14:01:41,863 - INFO - Processed 95600000 reads so far
2011-05-20 14:01:48,685 - INFO - Processed 95700000 reads so far
2011-05-20 14:01:57,108 - INFO - Processed 95800000 reads so far
2011-05-20 14:02:04,656 - INFO - Processed 95900000 reads so far
2011-05-20 14:02:13,272 - INFO - Processed 96000000 reads so far
2011-05-20 14:02:17,966 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:82990057-103010057
2011-05-20 14:02:20,713 - INFO - Processed 96100000 reads so far
2011-05-20 14:02:29,514 - INFO - Processed 96200000 reads so far
2011-05-20 14:02:37,873 - INFO - Processed 96300000 reads so far
2011-05-20 14:02:46,621 - INFO - Processed 96400000 reads so far
2011-05-20 14:02:54,072 - INFO - Processed 96500000 reads so far
2011-05-20 14:03:01,674 - INFO - Processed 96600000 reads so far
2011-05-20 14:03:09,986 - INFO - Processed 96700000 reads so far
2011-05-20 14:03:18,643 - INFO - Processed 96800000 reads so far
2011-05-20 14:03:27,531 - INFO - Processed 96900000 reads so far
2011-05-20 14:03:35,184 - INFO - Processed 97000000 reads so far
2011-05-20 14:03:44,156 - INFO - Processed 97100000 reads so far
2011-05-20 14:03:44,619 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:102990115-123010115
2011-05-20 14:03:52,217 - INFO - Processed 97200000 reads so far
2011-05-20 14:04:00,712 - INFO - Processed 97300000 reads so far
2011-05-20 14:04:10,174 - INFO - Processed 97400000 reads so far
2011-05-20 14:04:19,287 - INFO - Processed 97500000 reads so far
2011-05-20 14:04:28,308 - INFO - Processed 97600000 reads so far
2011-05-20 14:04:38,043 - INFO - Processed 97700000 reads so far
2011-05-20 14:04:46,270 - INFO - Processed 97800000 reads so far
2011-05-20 14:04:54,444 - INFO - Processed 97900000 reads so far
2011-05-20 14:05:01,665 - INFO - Processed 98000000 reads so far
2011-05-20 14:05:08,375 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:122990120-143010120
2011-05-20 14:05:11,421 - INFO - Processed 98100000 reads so far
2011-05-20 14:05:19,388 - INFO - Processed 98200000 reads so far
2011-05-20 14:05:29,545 - INFO - Processed 98300000 reads so far
2011-05-20 14:05:38,588 - INFO - Processed 98400000 reads so far
2011-05-20 14:05:46,809 - INFO - Processed 98500000 reads so far
2011-05-20 14:05:54,928 - INFO - Processed 98600000 reads so far
2011-05-20 14:06:03,718 - INFO - Processed 98700000 reads so far
2011-05-20 14:06:14,610 - INFO - Processed 98800000 reads so far
2011-05-20 14:06:23,802 - INFO - Processed 98900000 reads so far
2011-05-20 14:06:34,339 - INFO - Processed 99000000 reads so far
2011-05-20 14:06:45,165 - INFO - Processed 99100000 reads so far
2011-05-20 14:06:46,082 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:142990143-163010143
2011-05-20 14:06:54,611 - INFO - Processed 99200000 reads so far
2011-05-20 14:07:03,010 - INFO - Processed 99300000 reads so far
2011-05-20 14:07:10,105 - INFO - Processed 99400000 reads so far
2011-05-20 14:07:19,061 - INFO - Processed 99500000 reads so far
2011-05-20 14:07:26,909 - INFO - Processed 99600000 reads so far
2011-05-20 14:07:36,015 - INFO - Processed 99700000 reads so far
2011-05-20 14:07:44,456 - INFO - Processed 99800000 reads so far
2011-05-20 14:07:49,686 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4_random:0-20010126
2011-05-20 14:07:50,404 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:2990021-23010021
2011-05-20 14:07:53,754 - INFO - Processed 99900000 reads so far
2011-05-20 14:08:03,137 - INFO - Processed 100000000 reads so far
2011-05-20 14:08:10,921 - INFO - Processed 100100000 reads so far
2011-05-20 14:08:18,998 - INFO - Processed 100200000 reads so far
2011-05-20 14:08:26,869 - INFO - Processed 100300000 reads so far
2011-05-20 14:08:34,881 - INFO - Processed 100400000 reads so far
2011-05-20 14:08:43,451 - INFO - Processed 100500000 reads so far
2011-05-20 14:08:51,193 - INFO - Processed 100600000 reads so far
2011-05-20 14:08:59,658 - INFO - Processed 100700000 reads so far
2011-05-20 14:09:07,446 - INFO - Processed 100800000 reads so far
2011-05-20 14:09:16,787 - INFO - Processed 100900000 reads so far
2011-05-20 14:09:18,270 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:22990520-43010520
2011-05-20 14:09:24,113 - INFO - Processed 101000000 reads so far
2011-05-20 14:09:32,478 - INFO - Processed 101100000 reads so far
2011-05-20 14:09:43,324 - INFO - Processed 101200000 reads so far
2011-05-20 14:09:53,310 - INFO - Processed 101300000 reads so far
2011-05-20 14:10:04,547 - INFO - Processed 101400000 reads so far
2011-05-20 14:10:16,010 - INFO - Processed 101500000 reads so far
2011-05-20 14:10:27,101 - INFO - Processed 101600000 reads so far
2011-05-20 14:10:37,764 - INFO - Processed 101700000 reads so far
2011-05-20 14:10:48,880 - INFO - Processed 101800000 reads so far
2011-05-20 14:10:58,448 - INFO - Processed 101900000 reads so far
2011-05-20 14:11:02,927 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:42991689-63011689
2011-05-20 14:11:07,126 - INFO - Processed 102000000 reads so far
2011-05-20 14:11:15,283 - INFO - Processed 102100000 reads so far
2011-05-20 14:11:22,523 - INFO - Processed 102200000 reads so far
2011-05-20 14:11:30,657 - INFO - Processed 102300000 reads so far
2011-05-20 14:11:38,852 - INFO - Processed 102400000 reads so far
2011-05-20 14:11:47,183 - INFO - Processed 102500000 reads so far
2011-05-20 14:11:55,578 - INFO - Processed 102600000 reads so far
2011-05-20 14:12:03,485 - INFO - Processed 102700000 reads so far
2011-05-20 14:12:14,608 - INFO - Processed 102800000 reads so far
2011-05-20 14:12:26,380 - INFO - Processed 102900000 reads so far
2011-05-20 14:12:30,420 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:62991693-83011693
2011-05-20 14:12:37,882 - INFO - Processed 103000000 reads so far
2011-05-20 14:12:49,671 - INFO - Processed 103100000 reads so far
2011-05-20 14:13:00,129 - INFO - Processed 103200000 reads so far
2011-05-20 14:13:08,145 - INFO - Processed 103300000 reads so far
2011-05-20 14:13:16,424 - INFO - Processed 103400000 reads so far
2011-05-20 14:13:26,699 - INFO - Processed 103500000 reads so far
2011-05-20 14:13:37,413 - INFO - Processed 103600000 reads so far
2011-05-20 14:13:48,771 - INFO - Processed 103700000 reads so far
2011-05-20 14:13:59,965 - INFO - Processed 103800000 reads so far
2011-05-20 14:14:11,050 - INFO - Processed 103900000 reads so far
2011-05-20 14:14:15,689 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:82991700-103011700
2011-05-20 14:14:23,448 - INFO - Processed 104000000 reads so far
2011-05-20 14:14:34,735 - INFO - Processed 104100000 reads so far
2011-05-20 14:14:45,866 - INFO - Processed 104200000 reads so far
2011-05-20 14:14:58,046 - INFO - Processed 104300000 reads so far
2011-05-20 14:15:09,636 - INFO - Processed 104400000 reads so far
2011-05-20 14:15:20,907 - INFO - Processed 104500000 reads so far
2011-05-20 14:15:32,335 - INFO - Processed 104600000 reads so far
2011-05-20 14:15:43,616 - INFO - Processed 104700000 reads so far
2011-05-20 14:15:54,832 - INFO - Processed 104800000 reads so far
2011-05-20 14:16:04,623 - INFO - Processed 104900000 reads so far
2011-05-20 14:16:07,984 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:102991713-123011713
2011-05-20 14:16:14,871 - INFO - Processed 105000000 reads so far
2011-05-20 14:16:23,998 - INFO - Processed 105100000 reads so far
2011-05-20 14:16:35,211 - INFO - Processed 105200000 reads so far
2011-05-20 14:16:46,167 - INFO - Processed 105300000 reads so far
2011-05-20 14:16:57,517 - INFO - Processed 105400000 reads so far
2011-05-20 14:17:08,731 - INFO - Processed 105500000 reads so far
2011-05-20 14:17:20,172 - INFO - Processed 105600000 reads so far
2011-05-20 14:17:29,409 - INFO - Processed 105700000 reads so far
2011-05-20 14:17:39,675 - INFO - Processed 105800000 reads so far
2011-05-20 14:17:50,195 - INFO - Processed 105900000 reads so far
2011-05-20 14:18:00,241 - INFO - Processed 106000000 reads so far
2011-05-20 14:18:01,243 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:122991759-143011759
2011-05-20 14:18:10,761 - INFO - Processed 106100000 reads so far
2011-05-20 14:18:20,703 - INFO - Processed 106200000 reads so far
2011-05-20 14:18:30,169 - INFO - Processed 106300000 reads so far
2011-05-20 14:18:40,869 - INFO - Processed 106400000 reads so far
2011-05-20 14:18:51,472 - INFO - Processed 106500000 reads so far
2011-05-20 14:19:01,497 - INFO - Processed 106600000 reads so far
2011-05-20 14:19:10,193 - INFO - Processed 106700000 reads so far
2011-05-20 14:19:18,064 - INFO - Processed 106800000 reads so far
2011-05-20 14:19:25,856 - INFO - Processed 106900000 reads so far
2011-05-20 14:19:32,709 - INFO - Processed 107000000 reads so far
2011-05-20 14:19:37,374 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:142991790-163011790
2011-05-20 14:19:39,822 - INFO - Processed 107100000 reads so far
2011-05-20 14:19:47,442 - INFO - Processed 107200000 reads so far
2011-05-20 14:19:56,114 - INFO - Processed 107300000 reads so far
2011-05-20 14:20:07,263 - INFO - Processed 107400000 reads so far
2011-05-20 14:20:18,538 - INFO - Processed 107500000 reads so far
2011-05-20 14:20:25,630 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5_random:0-20010111
2011-05-20 14:20:26,253 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:2989950-23009950
2011-05-20 14:20:29,757 - INFO - Processed 107600000 reads so far
2011-05-20 14:20:40,127 - INFO - Processed 107700000 reads so far
2011-05-20 14:20:48,778 - INFO - Processed 107800000 reads so far
2011-05-20 14:20:56,922 - INFO - Processed 107900000 reads so far
2011-05-20 14:21:05,046 - INFO - Processed 108000000 reads so far
2011-05-20 14:21:14,307 - INFO - Processed 108100000 reads so far
2011-05-20 14:21:22,425 - INFO - Processed 108200000 reads so far
2011-05-20 14:21:31,520 - INFO - Processed 108300000 reads so far
2011-05-20 14:21:41,074 - INFO - Processed 108400000 reads so far
2011-05-20 14:21:49,253 - INFO - Processed 108500000 reads so far
2011-05-20 14:21:55,062 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:22989960-43009960
2011-05-20 14:21:57,411 - INFO - Processed 108600000 reads so far
2011-05-20 14:22:06,883 - INFO - Processed 108700000 reads so far
2011-05-20 14:22:16,140 - INFO - Processed 108800000 reads so far
2011-05-20 14:22:24,423 - INFO - Processed 108900000 reads so far
2011-05-20 14:22:32,255 - INFO - Processed 109000000 reads so far
2011-05-20 14:22:40,709 - INFO - Processed 109100000 reads so far
2011-05-20 14:22:49,264 - INFO - Processed 109200000 reads so far
2011-05-20 14:22:57,253 - INFO - Processed 109300000 reads so far
2011-05-20 14:23:05,495 - INFO - Processed 109400000 reads so far
2011-05-20 14:23:13,784 - INFO - Processed 109500000 reads so far
2011-05-20 14:23:23,999 - INFO - Processed 109600000 reads so far
2011-05-20 14:23:24,636 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:42989966-63009966
2011-05-20 14:23:32,124 - INFO - Processed 109700000 reads so far
2011-05-20 14:23:39,907 - INFO - Processed 109800000 reads so far
2011-05-20 14:23:47,814 - INFO - Processed 109900000 reads so far
2011-05-20 14:23:55,690 - INFO - Processed 110000000 reads so far
2011-05-20 14:24:03,582 - INFO - Processed 110100000 reads so far
2011-05-20 14:24:11,519 - INFO - Processed 110200000 reads so far
2011-05-20 14:24:19,264 - INFO - Processed 110300000 reads so far
2011-05-20 14:24:27,867 - INFO - Processed 110400000 reads so far
2011-05-20 14:24:37,776 - INFO - Processed 110500000 reads so far
2011-05-20 14:24:45,307 - INFO - Processed 110600000 reads so far
2011-05-20 14:24:49,942 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:62989979-83009979
2011-05-20 14:24:53,594 - INFO - Processed 110700000 reads so far
2011-05-20 14:25:03,520 - INFO - Processed 110800000 reads so far
2011-05-20 14:25:11,762 - INFO - Processed 110900000 reads so far
2011-05-20 14:25:20,009 - INFO - Processed 111000000 reads so far
2011-05-20 14:25:28,079 - INFO - Processed 111100000 reads so far
2011-05-20 14:25:38,070 - INFO - Processed 111200000 reads so far
2011-05-20 14:25:49,440 - INFO - Processed 111300000 reads so far
2011-05-20 14:25:58,699 - INFO - Processed 111400000 reads so far
2011-05-20 14:26:07,385 - INFO - Processed 111500000 reads so far
2011-05-20 14:26:16,004 - INFO - Processed 111600000 reads so far
2011-05-20 14:26:18,597 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:82990005-103010005
2011-05-20 14:26:26,780 - INFO - Processed 111700000 reads so far
2011-05-20 14:26:34,655 - INFO - Processed 111800000 reads so far
2011-05-20 14:26:43,254 - INFO - Processed 111900000 reads so far
2011-05-20 14:26:51,822 - INFO - Processed 112000000 reads so far
2011-05-20 14:26:59,689 - INFO - Processed 112100000 reads so far
2011-05-20 14:27:08,518 - INFO - Processed 112200000 reads so far
2011-05-20 14:27:16,293 - INFO - Processed 112300000 reads so far
2011-05-20 14:27:26,632 - INFO - Processed 112400000 reads so far
2011-05-20 14:27:36,985 - INFO - Processed 112500000 reads so far
2011-05-20 14:27:46,871 - INFO - Processed 112600000 reads so far
2011-05-20 14:27:54,976 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:102990015-123010015
2011-05-20 14:27:55,495 - INFO - Processed 112700000 reads so far
2011-05-20 14:28:02,888 - INFO - Processed 112800000 reads so far
2011-05-20 14:28:09,601 - INFO - Processed 112900000 reads so far
2011-05-20 14:28:17,219 - INFO - Processed 113000000 reads so far
2011-05-20 14:28:23,705 - INFO - Processed 113100000 reads so far
2011-05-20 14:28:30,987 - INFO - Processed 113200000 reads so far
2011-05-20 14:28:37,826 - INFO - Processed 113300000 reads so far
2011-05-20 14:28:44,429 - INFO - Processed 113400000 reads so far
2011-05-20 14:28:51,612 - INFO - Processed 113500000 reads so far
2011-05-20 14:28:58,684 - INFO - Processed 113600000 reads so far
2011-05-20 14:29:05,863 - INFO - Processed 113700000 reads so far
2011-05-20 14:29:12,352 - INFO - Processed 113800000 reads so far
2011-05-20 14:29:21,004 - INFO - Processed 113900000 reads so far
2011-05-20 14:29:29,203 - INFO - Processed 114000000 reads so far
2011-05-20 14:29:37,605 - INFO - Processed 114100000 reads so far
2011-05-20 14:29:46,199 - INFO - Processed 114200000 reads so far
2011-05-20 14:29:55,482 - INFO - Processed 114300000 reads so far
2011-05-20 14:30:04,126 - INFO - Processed 114400000 reads so far
2011-05-20 14:30:12,419 - INFO - Processed 114500000 reads so far
2011-05-20 14:30:21,667 - INFO - Processed 114600000 reads so far
2011-05-20 14:30:30,316 - INFO - Processed 114700000 reads so far
2011-05-20 14:30:39,372 - INFO - Processed 114800000 reads so far
2011-05-20 14:30:39,766 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:122990037-143010037
2011-05-20 14:30:51,029 - INFO - Processed 114900000 reads so far
2011-05-20 14:31:04,642 - INFO - Processed 115000000 reads so far
2011-05-20 14:31:35,280 - INFO - Processed 115100000 reads so far
2011-05-20 14:31:46,624 - INFO - Processed 115200000 reads so far
2011-05-20 14:31:57,105 - INFO - Processed 115300000 reads so far
2011-05-20 14:32:08,191 - INFO - Processed 115400000 reads so far
2011-05-20 14:32:19,477 - INFO - Processed 115500000 reads so far
2011-05-20 14:32:30,712 - INFO - Processed 115600000 reads so far
2011-05-20 14:32:41,615 - INFO - Processed 115700000 reads so far
2011-05-20 14:32:51,172 - INFO - Processed 115800000 reads so far
2011-05-20 14:32:55,836 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:142990075-163010075
2011-05-20 14:32:59,456 - INFO - Processed 115900000 reads so far
2011-05-20 14:33:07,448 - INFO - Processed 116000000 reads so far
2011-05-20 14:33:16,397 - INFO - Processed 116100000 reads so far
2011-05-20 14:33:24,803 - INFO - Processed 116200000 reads so far
2011-05-20 14:33:25,545 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:2990021-23010021
2011-05-20 14:33:34,961 - INFO - Processed 116300000 reads so far
2011-05-20 14:33:44,732 - INFO - Processed 116400000 reads so far
2011-05-20 14:33:53,938 - INFO - Processed 116500000 reads so far
2011-05-20 14:34:03,285 - INFO - Processed 116600000 reads so far
2011-05-20 14:34:11,444 - INFO - Processed 116700000 reads so far
2011-05-20 14:34:21,231 - INFO - Processed 116800000 reads so far
2011-05-20 14:34:31,660 - INFO - Processed 116900000 reads so far
2011-05-20 14:34:40,579 - INFO - Processed 117000000 reads so far
2011-05-20 14:34:48,510 - INFO - Processed 117100000 reads so far
2011-05-20 14:34:55,837 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:22990129-43010129
2011-05-20 14:34:58,873 - INFO - Processed 117200000 reads so far
2011-05-20 14:35:08,208 - INFO - Processed 117300000 reads so far
2011-05-20 14:35:19,531 - INFO - Processed 117400000 reads so far
2011-05-20 14:35:30,100 - INFO - Processed 117500000 reads so far
2011-05-20 14:35:39,845 - INFO - Processed 117600000 reads so far
2011-05-20 14:35:49,511 - INFO - Processed 117700000 reads so far
2011-05-20 14:35:58,824 - INFO - Processed 117800000 reads so far
2011-05-20 14:36:09,795 - INFO - Processed 117900000 reads so far
2011-05-20 14:36:14,263 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:46347500-66367500
2011-05-20 14:36:18,585 - INFO - Processed 118000000 reads so far
2011-05-20 14:36:27,903 - INFO - Processed 118100000 reads so far
2011-05-20 14:36:38,134 - INFO - Processed 118200000 reads so far
2011-05-20 14:36:48,962 - INFO - Processed 118300000 reads so far
2011-05-20 14:37:00,158 - INFO - Processed 118400000 reads so far
2011-05-20 14:37:09,827 - INFO - Processed 118500000 reads so far
2011-05-20 14:37:19,012 - INFO - Processed 118600000 reads so far
2011-05-20 14:37:28,720 - INFO - Processed 118700000 reads so far
2011-05-20 14:37:40,719 - INFO - Processed 118800000 reads so far
2011-05-20 14:37:51,993 - INFO - Processed 118900000 reads so far
2011-05-20 14:38:04,272 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:66347505-86367505
2011-05-20 14:38:04,634 - INFO - Processed 119000000 reads so far
2011-05-20 14:38:17,131 - INFO - Processed 119100000 reads so far
2011-05-20 14:38:28,485 - INFO - Processed 119200000 reads so far
2011-05-20 14:38:35,581 - INFO - Processed 119300000 reads so far
2011-05-20 14:38:47,077 - INFO - Processed 119400000 reads so far
2011-05-20 14:38:56,225 - INFO - Processed 119500000 reads so far
2011-05-20 14:39:04,587 - INFO - Processed 119600000 reads so far
2011-05-20 14:39:11,582 - INFO - Processed 119700000 reads so far
2011-05-20 14:39:22,861 - INFO - Processed 119800000 reads so far
2011-05-20 14:39:33,260 - INFO - Processed 119900000 reads so far
2011-05-20 14:39:43,474 - INFO - Processed 120000000 reads so far
2011-05-20 14:39:49,205 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:86347522-106367522
2011-05-20 14:39:54,273 - INFO - Processed 120100000 reads so far
2011-05-20 14:40:05,063 - INFO - Processed 120200000 reads so far
2011-05-20 14:40:16,143 - INFO - Processed 120300000 reads so far
2011-05-20 14:40:27,249 - INFO - Processed 120400000 reads so far
2011-05-20 14:40:36,314 - INFO - Processed 120500000 reads so far
2011-05-20 14:40:47,293 - INFO - Processed 120600000 reads so far
2011-05-20 14:40:56,428 - INFO - Processed 120700000 reads so far
2011-05-20 14:41:09,126 - INFO - Processed 120800000 reads so far
2011-05-20 14:41:18,820 - INFO - Processed 120900000 reads so far
2011-05-20 14:41:26,149 - INFO - Processed 121000000 reads so far
2011-05-20 14:41:33,011 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:106347601-126367601
2011-05-20 14:41:34,905 - INFO - Processed 121100000 reads so far
2011-05-20 14:41:42,486 - INFO - Processed 121200000 reads so far
2011-05-20 14:41:49,575 - INFO - Processed 121300000 reads so far
2011-05-20 14:41:58,055 - INFO - Processed 121400000 reads so far
2011-05-20 14:42:07,300 - INFO - Processed 121500000 reads so far
2011-05-20 14:42:17,786 - INFO - Processed 121600000 reads so far
2011-05-20 14:42:24,693 - INFO - Processed 121700000 reads so far
2011-05-20 14:42:34,878 - INFO - Processed 121800000 reads so far
2011-05-20 14:42:44,417 - INFO - Processed 121900000 reads so far
2011-05-20 14:42:51,848 - INFO - Processed 122000000 reads so far
2011-05-20 14:43:00,429 - INFO - Processed 122100000 reads so far
2011-05-20 14:43:02,812 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:126347609-146367609
2011-05-20 14:43:08,064 - INFO - Processed 122200000 reads so far
2011-05-20 14:43:19,513 - INFO - Processed 122300000 reads so far
2011-05-20 14:43:29,671 - INFO - Processed 122400000 reads so far
2011-05-20 14:43:36,455 - INFO - Processed 122500000 reads so far
2011-05-20 14:43:43,521 - INFO - Processed 122600000 reads so far
2011-05-20 14:43:52,621 - INFO - Processed 122700000 reads so far
2011-05-20 14:44:00,606 - INFO - Processed 122800000 reads so far
2011-05-20 14:44:08,131 - INFO - Processed 122900000 reads so far
2011-05-20 14:44:17,476 - INFO - Processed 123000000 reads so far
2011-05-20 14:44:26,866 - INFO - Processed 123100000 reads so far
2011-05-20 14:44:35,083 - INFO - Processed 123200000 reads so far
2011-05-20 14:44:36,671 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:146347623-166367623
2011-05-20 14:44:46,002 - INFO - Processed 123300000 reads so far
2011-05-20 14:44:55,160 - INFO - Processed 123400000 reads so far
2011-05-20 14:45:03,724 - INFO - Processed 123500000 reads so far
2011-05-20 14:45:07,642 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7_random:0-20010015
2011-05-20 14:45:08,824 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:2990008-23010008
2011-05-20 14:45:11,835 - INFO - Processed 123600000 reads so far
2011-05-20 14:45:21,994 - INFO - Processed 123700000 reads so far
2011-05-20 14:45:31,015 - INFO - Processed 123800000 reads so far
2011-05-20 14:45:37,766 - INFO - Processed 123900000 reads so far
2011-05-20 14:45:46,870 - INFO - Processed 124000000 reads so far
2011-05-20 14:45:53,720 - INFO - Processed 124100000 reads so far
2011-05-20 14:46:01,640 - INFO - Processed 124200000 reads so far
2011-05-20 14:46:14,443 - INFO - Processed 124300000 reads so far
2011-05-20 14:46:23,114 - INFO - Processed 124400000 reads so far
2011-05-20 14:46:31,351 - INFO - Processed 124500000 reads so far
2011-05-20 14:46:39,576 - INFO - Processed 124600000 reads so far
2011-05-20 14:46:52,721 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:22990017-43010017
2011-05-20 14:46:55,793 - INFO - Processed 124700000 reads so far
2011-05-20 14:47:05,483 - INFO - Processed 124800000 reads so far
2011-05-20 14:47:14,447 - INFO - Processed 124900000 reads so far
2011-05-20 14:47:23,740 - INFO - Processed 125000000 reads so far
2011-05-20 14:47:34,870 - INFO - Processed 125100000 reads so far
2011-05-20 14:47:43,180 - INFO - Processed 125200000 reads so far
2011-05-20 14:47:51,850 - INFO - Processed 125300000 reads so far
2011-05-20 14:48:01,372 - INFO - Processed 125400000 reads so far
2011-05-20 14:48:12,092 - INFO - Processed 125500000 reads so far
2011-05-20 14:48:21,022 - INFO - Processed 125600000 reads so far
2011-05-20 14:48:28,193 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:42990093-63010093
2011-05-20 14:48:29,176 - INFO - Processed 125700000 reads so far
2011-05-20 14:48:38,422 - INFO - Processed 125800000 reads so far
2011-05-20 14:48:47,975 - INFO - Processed 125900000 reads so far
2011-05-20 14:48:57,057 - INFO - Processed 126000000 reads so far
2011-05-20 14:49:05,414 - INFO - Processed 126100000 reads so far
2011-05-20 14:49:14,477 - INFO - Processed 126200000 reads so far
2011-05-20 14:49:23,574 - INFO - Processed 126300000 reads so far
2011-05-20 14:49:32,694 - INFO - Processed 126400000 reads so far
2011-05-20 14:49:43,415 - INFO - Processed 126500000 reads so far
2011-05-20 14:49:52,288 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:62990101-83010101
2011-05-20 14:49:52,727 - INFO - Processed 126600000 reads so far
2011-05-20 14:50:03,124 - INFO - Processed 126700000 reads so far
2011-05-20 14:50:11,818 - INFO - Processed 126800000 reads so far
2011-05-20 14:50:24,344 - INFO - Processed 126900000 reads so far
2011-05-20 14:50:36,800 - INFO - Processed 127000000 reads so far
2011-05-20 14:50:50,937 - INFO - Processed 127100000 reads so far
2011-05-20 14:51:04,044 - INFO - Processed 127200000 reads so far
2011-05-20 14:51:20,539 - INFO - Processed 127300000 reads so far
2011-05-20 14:51:32,577 - INFO - Processed 127400000 reads so far
2011-05-20 14:51:46,385 - INFO - Processed 127500000 reads so far
2011-05-20 14:51:56,216 - INFO - Processed 127600000 reads so far
2011-05-20 14:51:59,579 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:82990103-103010103
2011-05-20 14:52:07,187 - INFO - Processed 127700000 reads so far
2011-05-20 14:52:16,547 - INFO - Processed 127800000 reads so far
2011-05-20 14:52:27,003 - INFO - Processed 127900000 reads so far
2011-05-20 14:52:36,553 - INFO - Processed 128000000 reads so far
2011-05-20 14:52:50,544 - INFO - Processed 128100000 reads so far
2011-05-20 14:53:01,843 - INFO - Processed 128200000 reads so far
2011-05-20 14:53:12,328 - INFO - Processed 128300000 reads so far
2011-05-20 14:53:23,179 - INFO - Processed 128400000 reads so far
2011-05-20 14:53:32,185 - INFO - Processed 128500000 reads so far
2011-05-20 14:53:41,258 - INFO - Processed 128600000 reads so far
2011-05-20 14:53:46,842 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:102990117-123010117
2011-05-20 14:53:49,576 - INFO - Processed 128700000 reads so far
2011-05-20 14:54:00,174 - INFO - Processed 128800000 reads so far
2011-05-20 14:54:08,112 - INFO - Processed 128900000 reads so far
2011-05-20 14:54:17,648 - INFO - Processed 129000000 reads so far
2011-05-20 14:54:26,161 - INFO - Processed 129100000 reads so far
2011-05-20 14:54:36,619 - INFO - Processed 129200000 reads so far
2011-05-20 14:54:45,475 - INFO - Processed 129300000 reads so far
2011-05-20 14:54:54,445 - INFO - Processed 129400000 reads so far
2011-05-20 14:55:03,865 - INFO - Processed 129500000 reads so far
2011-05-20 14:55:15,196 - INFO - Processed 129600000 reads so far
2011-05-20 14:55:23,757 - INFO - Processed 129700000 reads so far
2011-05-20 14:55:25,012 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:122990119-143010119
2011-05-20 14:55:32,470 - INFO - Processed 129800000 reads so far
2011-05-20 14:55:41,441 - INFO - Processed 129900000 reads so far
2011-05-20 14:55:52,862 - INFO - Processed 130000000 reads so far
2011-05-20 14:56:01,864 - INFO - Processed 130100000 reads so far
2011-05-20 14:56:09,501 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8_random:0-20010041
2011-05-20 14:56:10,242 - INFO - Processed 130200000 reads so far
2011-05-20 14:56:20,007 - INFO - Processed 130300000 reads so far
2011-05-20 14:56:21,282 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:2989967-23009967
2011-05-20 14:56:29,039 - INFO - Processed 130400000 reads so far
2011-05-20 14:56:37,786 - INFO - Processed 130500000 reads so far
2011-05-20 14:56:44,113 - INFO - Processed 130600000 reads so far
2011-05-20 14:56:52,033 - INFO - Processed 130700000 reads so far
2011-05-20 14:57:01,139 - INFO - Processed 130800000 reads so far
2011-05-20 14:57:09,750 - INFO - Processed 130900000 reads so far
2011-05-20 14:57:18,823 - INFO - Processed 131000000 reads so far
2011-05-20 14:57:27,783 - INFO - Processed 131100000 reads so far
2011-05-20 14:57:36,716 - INFO - Processed 131200000 reads so far
2011-05-20 14:57:43,980 - INFO - Processed 131300000 reads so far
2011-05-20 14:57:53,096 - INFO - Processed 131400000 reads so far
2011-05-20 14:58:02,039 - INFO - Processed 131500000 reads so far
2011-05-20 14:58:10,010 - INFO - Processed 131600000 reads so far
2011-05-20 14:58:17,596 - INFO - Processed 131700000 reads so far
2011-05-20 14:58:26,499 - INFO - Processed 131800000 reads so far
2011-05-20 14:58:34,978 - INFO - Processed 131900000 reads so far
2011-05-20 14:58:44,675 - INFO - Processed 132000000 reads so far
2011-05-20 14:58:53,676 - INFO - Processed 132100000 reads so far
2011-05-20 14:59:03,385 - INFO - Processed 132200000 reads so far
2011-05-20 14:59:11,729 - INFO - Processed 132300000 reads so far
2011-05-20 14:59:21,112 - INFO - Processed 132400000 reads so far
2011-05-20 14:59:29,895 - INFO - Processed 132500000 reads so far
2011-05-20 14:59:39,048 - INFO - Processed 132600000 reads so far
2011-05-20 14:59:49,287 - INFO - Processed 132700000 reads so far
2011-05-20 14:59:57,143 - INFO - Processed 132800000 reads so far
2011-05-20 15:00:04,643 - INFO - Processed 132900000 reads so far
2011-05-20 15:00:12,627 - INFO - Processed 133000000 reads so far
2011-05-20 15:00:20,371 - INFO - Processed 133100000 reads so far
2011-05-20 15:00:27,803 - INFO - Processed 133200000 reads so far
2011-05-20 15:00:36,615 - INFO - Processed 133300000 reads so far
2011-05-20 15:00:45,788 - INFO - Processed 133400000 reads so far
2011-05-20 15:00:53,038 - INFO - Processed 133500000 reads so far
2011-05-20 15:01:02,497 - INFO - Processed 133600000 reads so far
2011-05-20 15:01:11,663 - INFO - Processed 133700000 reads so far
2011-05-20 15:01:21,068 - INFO - Processed 133800000 reads so far
2011-05-20 15:01:30,478 - INFO - Processed 133900000 reads so far
2011-05-20 15:01:39,619 - INFO - Processed 134000000 reads so far
2011-05-20 15:01:48,122 - INFO - Processed 134100000 reads so far
2011-05-20 15:01:57,152 - INFO - Processed 134200000 reads so far
2011-05-20 15:02:06,963 - INFO - Processed 134300000 reads so far
2011-05-20 15:02:15,849 - INFO - Processed 134400000 reads so far
2011-05-20 15:02:24,046 - INFO - Processed 134500000 reads so far
2011-05-20 15:02:34,261 - INFO - Processed 134600000 reads so far
2011-05-20 15:02:43,715 - INFO - Processed 134700000 reads so far
2011-05-20 15:02:51,575 - INFO - Processed 134800000 reads so far
2011-05-20 15:03:00,485 - INFO - Processed 134900000 reads so far
2011-05-20 15:03:08,761 - INFO - Processed 135000000 reads so far
2011-05-20 15:03:17,173 - INFO - Processed 135100000 reads so far
2011-05-20 15:03:27,618 - INFO - Processed 135200000 reads so far
2011-05-20 15:03:36,176 - INFO - Processed 135300000 reads so far
2011-05-20 15:03:44,983 - INFO - Processed 135400000 reads so far
2011-05-20 15:03:54,262 - INFO - Processed 135500000 reads so far
2011-05-20 15:04:03,171 - INFO - Processed 135600000 reads so far
2011-05-20 15:04:11,797 - INFO - Processed 135700000 reads so far
2011-05-20 15:04:19,631 - INFO - Processed 135800000 reads so far
2011-05-20 15:04:27,558 - INFO - Processed 135900000 reads so far
2011-05-20 15:04:36,639 - INFO - Processed 136000000 reads so far
2011-05-20 15:04:47,009 - INFO - Processed 136100000 reads so far
2011-05-20 15:04:55,862 - INFO - Processed 136200000 reads so far
2011-05-20 15:05:05,423 - INFO - Processed 136300000 reads so far
2011-05-20 15:05:14,780 - INFO - Processed 136400000 reads so far
2011-05-20 15:05:24,401 - INFO - Processed 136500000 reads so far
2011-05-20 15:05:33,256 - INFO - Processed 136600000 reads so far
2011-05-20 15:05:42,661 - INFO - Processed 136700000 reads so far
2011-05-20 15:05:51,235 - INFO - Processed 136800000 reads so far
2011-05-20 15:06:01,881 - INFO - Processed 136900000 reads so far
2011-05-20 15:06:14,649 - INFO - Processed 137000000 reads so far
2011-05-20 15:06:26,373 - INFO - Processed 137100000 reads so far
2011-05-20 15:06:37,925 - INFO - Processed 137200000 reads so far
2011-05-20 15:06:50,921 - INFO - Processed 137300000 reads so far
2011-05-20 15:07:01,679 - INFO - Processed 137400000 reads so far
2011-05-20 15:07:11,576 - INFO - Processed 137500000 reads so far
2011-05-20 15:07:20,107 - INFO - Processed 137600000 reads so far
2011-05-20 15:07:31,143 - INFO - Processed 137700000 reads so far
2011-05-20 15:07:42,518 - INFO - Processed 137800000 reads so far
2011-05-20 15:07:47,166 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:22989969-43009969
2011-05-20 15:07:50,903 - INFO - Processed 137900000 reads so far
2011-05-20 15:07:59,559 - INFO - Processed 138000000 reads so far
2011-05-20 15:08:09,211 - INFO - Processed 138100000 reads so far
2011-05-20 15:08:19,920 - INFO - Processed 138200000 reads so far
2011-05-20 15:08:30,922 - INFO - Processed 138300000 reads so far
2011-05-20 15:08:40,645 - INFO - Processed 138400000 reads so far
2011-05-20 15:08:50,408 - INFO - Processed 138500000 reads so far
2011-05-20 15:08:57,030 - INFO - Processed 138600000 reads so far
2011-05-20 15:09:05,255 - INFO - Processed 138700000 reads so far
2011-05-20 15:09:14,432 - INFO - Processed 138800000 reads so far
2011-05-20 15:09:33,850 - INFO - Processed 138900000 reads so far
2011-05-20 15:09:42,500 - INFO - Processed 139000000 reads so far
2011-05-20 15:09:48,085 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:42989976-63009976
2011-05-20 15:09:50,352 - INFO - Processed 139100000 reads so far
2011-05-20 15:10:08,415 - INFO - Processed 139200000 reads so far
2011-05-20 15:10:30,105 - INFO - Processed 139300000 reads so far
2011-05-20 15:10:41,439 - INFO - Processed 139400000 reads so far
2011-05-20 15:10:48,397 - INFO - Processed 139500000 reads so far
2011-05-20 15:10:55,234 - INFO - Processed 139600000 reads so far
2011-05-20 15:11:02,286 - INFO - Processed 139700000 reads so far
2011-05-20 15:11:09,156 - INFO - Processed 139800000 reads so far
2011-05-20 15:11:16,369 - INFO - Processed 139900000 reads so far
2011-05-20 15:11:24,282 - INFO - Processed 140000000 reads so far
2011-05-20 15:11:32,133 - INFO - Processed 140100000 reads so far
2011-05-20 15:11:35,457 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:62989984-83009984
2011-05-20 15:11:41,830 - INFO - Processed 140200000 reads so far
2011-05-20 15:11:49,875 - INFO - Processed 140300000 reads so far
2011-05-20 15:11:57,280 - INFO - Processed 140400000 reads so far
2011-05-20 15:12:05,484 - INFO - Processed 140500000 reads so far
2011-05-20 15:12:14,423 - INFO - Processed 140600000 reads so far
2011-05-20 15:12:27,170 - INFO - Processed 140700000 reads so far
2011-05-20 15:12:38,860 - INFO - Processed 140800000 reads so far
2011-05-20 15:12:50,197 - INFO - Processed 140900000 reads so far
2011-05-20 15:13:01,704 - INFO - Processed 141000000 reads so far
2011-05-20 15:13:13,418 - INFO - Processed 141100000 reads so far
2011-05-20 15:13:22,350 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:82989985-103009985
2011-05-20 15:13:24,976 - INFO - Processed 141200000 reads so far
2011-05-20 15:13:37,474 - INFO - Processed 141300000 reads so far
2011-05-20 15:13:49,624 - INFO - Processed 141400000 reads so far
2011-05-20 15:14:01,406 - INFO - Processed 141500000 reads so far
2011-05-20 15:14:11,156 - INFO - Processed 141600000 reads so far
2011-05-20 15:14:20,610 - INFO - Processed 141700000 reads so far
2011-05-20 15:14:29,180 - INFO - Processed 141800000 reads so far
2011-05-20 15:14:39,879 - INFO - Processed 141900000 reads so far
2011-05-20 15:14:50,684 - INFO - Processed 142000000 reads so far
2011-05-20 15:15:01,532 - INFO - Processed 142100000 reads so far
2011-05-20 15:15:11,710 - INFO - Processed 142200000 reads so far
2011-05-20 15:15:12,734 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:102989999-123009999
2011-05-20 15:15:22,467 - INFO - Processed 142300000 reads so far
2011-05-20 15:15:35,189 - INFO - Processed 142400000 reads so far
2011-05-20 15:15:47,317 - INFO - Processed 142500000 reads so far
2011-05-20 15:15:59,057 - INFO - Processed 142600000 reads so far
2011-05-20 15:16:10,189 - INFO - Processed 142700000 reads so far
2011-05-20 15:16:21,024 - INFO - Processed 142800000 reads so far
2011-05-20 15:16:33,587 - INFO - Processed 142900000 reads so far
2011-05-20 15:16:44,834 - INFO - Processed 143000000 reads so far
2011-05-20 15:16:56,147 - INFO - Processed 143100000 reads so far
2011-05-20 15:17:07,707 - INFO - Processed 143200000 reads so far
2011-05-20 15:17:18,621 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:122990076-143010076
2011-05-20 15:17:19,704 - INFO - Processed 143300000 reads so far
2011-05-20 15:17:25,681 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9_random:0-20010005
2011-05-20 15:17:29,586 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrM:0-20010000
2011-05-20 15:17:31,221 - INFO - Processed 143400000 reads so far
2011-05-20 15:17:34,303 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrUn_random:0-20010000
2011-05-20 15:17:41,448 - INFO - Processed 143500000 reads so far
2011-05-20 15:17:51,966 - INFO - Processed 143600000 reads so far
2011-05-20 15:18:00,675 - INFO - Processed 143700000 reads so far
2011-05-20 15:18:08,154 - INFO - Processed 143800000 reads so far
2011-05-20 15:18:12,112 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:2990000-23010000
2011-05-20 15:18:17,978 - INFO - Processed 143900000 reads so far
2011-05-20 15:18:26,561 - INFO - Processed 144000000 reads so far
2011-05-20 15:18:36,096 - INFO - Processed 144100000 reads so far
2011-05-20 15:18:45,642 - INFO - Processed 144200000 reads so far
2011-05-20 15:18:55,480 - INFO - Processed 144300000 reads so far
2011-05-20 15:19:04,364 - INFO - Processed 144400000 reads so far
2011-05-20 15:19:09,389 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:22990055-43010055
2011-05-20 15:19:14,107 - INFO - Processed 144500000 reads so far
2011-05-20 15:19:23,398 - INFO - Processed 144600000 reads so far
2011-05-20 15:19:31,177 - INFO - Processed 144700000 reads so far
2011-05-20 15:19:39,601 - INFO - Processed 144800000 reads so far
2011-05-20 15:19:49,088 - INFO - Processed 144900000 reads so far
2011-05-20 15:19:58,087 - INFO - Processed 145000000 reads so far
2011-05-20 15:20:02,536 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:42990070-63010070
2011-05-20 15:20:07,908 - INFO - Processed 145100000 reads so far
2011-05-20 15:20:16,496 - INFO - Processed 145200000 reads so far
2011-05-20 15:20:27,540 - INFO - Processed 145300000 reads so far
2011-05-20 15:20:40,040 - INFO - Processed 145400000 reads so far
2011-05-20 15:20:51,479 - INFO - Processed 145500000 reads so far
2011-05-20 15:21:01,058 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:62990093-83010093
2011-05-20 15:21:03,191 - INFO - Processed 145600000 reads so far
2011-05-20 15:21:14,708 - INFO - Processed 145700000 reads so far
2011-05-20 15:21:26,426 - INFO - Processed 145800000 reads so far
2011-05-20 15:21:36,763 - INFO - Processed 145900000 reads so far
2011-05-20 15:21:47,642 - INFO - Processed 146000000 reads so far
2011-05-20 15:21:58,234 - INFO - Processed 146100000 reads so far
2011-05-20 15:22:00,198 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:82990115-103010115
2011-05-20 15:22:09,456 - INFO - Processed 146200000 reads so far
2011-05-20 15:22:18,248 - INFO - Processed 146300000 reads so far
2011-05-20 15:22:28,231 - INFO - Processed 146400000 reads so far
2011-05-20 15:22:38,558 - INFO - Processed 146500000 reads so far
2011-05-20 15:22:47,431 - INFO - Processed 146600000 reads so far
2011-05-20 15:22:50,504 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:102990211-123010211
2011-05-20 15:22:55,284 - INFO - Processed 146700000 reads so far
2011-05-20 15:23:03,564 - INFO - Processed 146800000 reads so far
2011-05-20 15:23:12,838 - INFO - Processed 146900000 reads so far
2011-05-20 15:23:20,768 - INFO - Processed 147000000 reads so far
2011-05-20 15:23:29,927 - INFO - Processed 147100000 reads so far
2011-05-20 15:23:37,997 - INFO - Processed 147200000 reads so far
2011-05-20 15:23:44,553 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:122990238-143010238
2011-05-20 15:23:46,719 - INFO - Processed 147300000 reads so far
2011-05-20 15:23:54,294 - INFO - Processed 147400000 reads so far
2011-05-20 15:24:01,959 - INFO - Processed 147500000 reads so far
2011-05-20 15:24:11,417 - INFO - Processed 147600000 reads so far
2011-05-20 15:24:20,690 - INFO - Processed 147700000 reads so far
2011-05-20 15:24:27,931 - INFO - Processed 147800000 reads so far
2011-05-20 15:24:34,847 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:142990242-163010242
2011-05-20 15:24:38,082 - INFO - Processed 147900000 reads so far
2011-05-20 15:24:47,504 - INFO - Processed 148000000 reads so far
2011-05-20 15:24:57,901 - INFO - Processed 148100000 reads so far
2011-05-20 15:25:07,595 - INFO - Processed 148200000 reads so far
2011-05-20 15:25:18,209 - INFO - Processed 148300000 reads so far
2011-05-20 15:25:25,097 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:162990253-183010253
2011-05-20 15:25:27,194 - INFO - Processed 148400000 reads so far
2011-05-20 15:25:35,800 - INFO - Processed 148500000 reads so far
2011-05-20 15:25:43,225 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX_random:0-20010000
2011-05-20 15:25:44,601 - INFO - Processed 148600000 reads so far
2011-05-20 15:25:45,694 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrY:0-20010009
2011-05-20 15:25:53,820 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrY_random:0-20010153
2011-05-20 15:25:54,431 - INFO - Processed 148700000 reads so far
2011-05-20 15:26:05,964 - INFO - Processed 148800000 reads so far
2011-05-20 15:26:17,688 - INFO - Processed 148900000 reads so far
2011-05-20 15:26:28,735 - INFO - Processed 149000000 reads so far
2011-05-20 15:26:39,759 - INFO - Processed 149100000 reads so far
2011-05-20 15:26:51,551 - INFO - Processed 149200000 reads so far
2011-05-20 15:27:01,802 - INFO - Processed 149300000 reads so far
2011-05-20 15:27:11,873 - INFO - Processed 149400000 reads so far
2011-05-20 15:27:21,590 - INFO - Processed 149500000 reads so far
2011-05-20 15:27:26,641 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrY_random:19990572-40010572
2011-05-20 15:27:32,620 - INFO - Processed 149600000 reads so far
2011-05-20 15:27:44,021 - INFO - Processed 149700000 reads so far
2011-05-20 15:27:55,743 - INFO - Processed 149800000 reads so far
2011-05-20 15:28:05,816 - INFO - Processed 149900000 reads so far
2011-05-20 15:28:16,283 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrY_random:39990581-60010581
2011-05-20 15:28:16,540 - INFO - Processed 150000000 reads so far
2011-05-20 15:28:25,168 - INFO - Processed 150100000 reads so far
2011-05-20 15:28:34,959 - INFO - Processed 150200000 reads so far
2011-05-20 15:28:43,358 - INFO - Processed 150300000 reads so far
2011-05-20 15:28:53,063 - INFO - Processed 150400000 reads so far
2011-05-20 15:29:01,210 - INFO - Processed 150500000 reads so far
2011-05-20 15:29:11,223 - INFO - Processed 150600000 reads so far
2011-05-20 15:29:17,512 - INFO - Processed 150700000 reads so far
2011-05-20 15:29:21,499 - INFO - Processed 150800000 reads so far
2011-05-20 15:29:25,297 - INFO - Processed 150900000 reads so far
2011-05-20 15:29:29,269 - INFO - Processed 151000000 reads so far
2011-05-20 15:29:33,315 - INFO - Processed 151100000 reads so far
2011-05-20 15:29:37,756 - INFO - Processed 151200000 reads so far
2011-05-20 15:29:43,524 - INFO - Processed 151300000 reads so far
2011-05-20 15:29:48,275 - INFO - Processed 151400000 reads so far
2011-05-20 15:29:53,327 - INFO - Processed 151500000 reads so far
2011-05-20 15:29:58,713 - INFO - Processed 151600000 reads so far
2011-05-20 15:30:03,324 - INFO - Processed 151700000 reads so far
2011-05-20 15:30:07,844 - INFO - Processed 151800000 reads so far
2011-05-20 15:30:13,446 - INFO - Processed 151900000 reads so far
2011-05-20 15:30:19,270 - INFO - Processed 152000000 reads so far
2011-05-20 15:30:22,903 - INFO - Processed 152100000 reads so far
2011-05-20 15:30:27,520 - INFO - Processed 152200000 reads so far
2011-05-20 15:30:30,938 - INFO - Processed 152300000 reads so far
2011-05-20 15:30:34,161 - INFO - Processed 152400000 reads so far
2011-05-20 15:30:38,220 - INFO - Processed 152500000 reads so far
2011-05-20 15:30:41,340 - INFO - Processed 152600000 reads so far
2011-05-20 15:30:46,931 - INFO - Processed 152700000 reads so far
2011-05-20 15:30:47,223 - INFO - Finished loading data. Outputting QC metrics
2011-05-20 15:31:06,240 - INFO - Finished outputting QC metrics
2011-05-20 15:31:06,337 - INFO - Finished generating QC metrics