2011-05-20 08:59:52,329 - INFO - Generating QC metrics for BAM File ['WTCHG_13408.bam']
2011-05-20 08:59:52,330 - INFO - Output will go to WTCHG_13408.qc.txt.tmp
2011-05-20 08:59:52,330 - INFO - Reading GC Map from file /data/Genomes/gcMap/Mouse37.gcMap.gz
2011-05-20 09:02:55,623 - INFO - Finished reading GC Map
2011-05-20 09:02:55,640 - INFO - Reading CDS from exon definition file /data/Genomes/annotation/Mouse37.refGene.txt.gz
2011-05-20 09:02:58,622 - INFO - Read 382138 exons (33804740 nucleotides) for 32 chromosomes
2011-05-20 09:02:58,623 - INFO - Computing coverage cut-off
2011-05-20 09:02:58,623 - INFO - Retrieving BAM file coverage info from samtools pileup
2011-05-20 09:03:02,889 - INFO - Processed 1000000 pile-up sites
2011-05-20 09:03:07,176 - INFO - Processed 2000000 pile-up sites
2011-05-20 09:03:10,019 - INFO - Processed 3000000 pile-up sites
2011-05-20 09:03:14,054 - INFO - Processed 4000000 pile-up sites
2011-05-20 09:03:16,892 - INFO - Processed 5000000 pile-up sites
2011-05-20 09:03:19,340 - INFO - Processed 6000000 pile-up sites
2011-05-20 09:03:23,052 - INFO - Processed 7000000 pile-up sites
2011-05-20 09:03:25,648 - INFO - Processed 8000000 pile-up sites
2011-05-20 09:03:28,136 - INFO - Processed 9000000 pile-up sites
2011-05-20 09:03:31,264 - INFO - Processed 10000000 pile-up sites
2011-05-20 09:03:33,724 - INFO - Processed 11000000 pile-up sites
2011-05-20 09:03:36,153 - INFO - Processed 12000000 pile-up sites
2011-05-20 09:03:38,568 - INFO - Processed 13000000 pile-up sites
2011-05-20 09:03:41,004 - INFO - Processed 14000000 pile-up sites
2011-05-20 09:03:43,457 - INFO - Processed 15000000 pile-up sites
2011-05-20 09:03:46,140 - INFO - Processed 16000000 pile-up sites
2011-05-20 09:04:18,403 - INFO - Processed 17000000 pile-up sites
2011-05-20 09:04:22,155 - INFO - Processed 18000000 pile-up sites
2011-05-20 09:04:26,317 - INFO - Processed 19000000 pile-up sites
2011-05-20 09:04:30,433 - INFO - Processed 20000000 pile-up sites
2011-05-20 09:04:34,695 - INFO - Processed 21000000 pile-up sites
2011-05-20 09:04:40,857 - INFO - Processed 22000000 pile-up sites
2011-05-20 09:04:44,880 - INFO - Processed 23000000 pile-up sites
2011-05-20 09:04:48,901 - INFO - Processed 24000000 pile-up sites
2011-05-20 09:04:52,987 - INFO - Processed 25000000 pile-up sites
2011-05-20 09:04:57,210 - INFO - Processed 26000000 pile-up sites
2011-05-20 09:05:01,500 - INFO - Processed 27000000 pile-up sites
2011-05-20 09:05:06,016 - INFO - Processed 28000000 pile-up sites
2011-05-20 09:05:08,365 - INFO - Finished processing pile-up on 28525235 sites (200000009 nucleotides)
2011-05-20 09:05:08,365 - INFO - Coverage cut-off value is 33
2011-05-20 09:05:08,365 - INFO - Loading data into QC data manager
2011-05-20 09:05:08,620 - INFO - Reading data from BAM file WTCHG_13408.bam. All reads in file will be read
2011-05-20 09:05:08,661 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:2990031-23010031
2011-05-20 09:05:18,654 - INFO - Processed 100000 reads so far
2011-05-20 09:05:28,910 - INFO - Processed 200000 reads so far
2011-05-20 09:05:39,528 - INFO - Processed 300000 reads so far
2011-05-20 09:05:50,724 - INFO - Processed 400000 reads so far
2011-05-20 09:06:01,203 - INFO - Processed 500000 reads so far
2011-05-20 09:06:12,389 - INFO - Processed 600000 reads so far
2011-05-20 09:06:23,279 - INFO - Processed 700000 reads so far
2011-05-20 09:06:33,815 - INFO - Processed 800000 reads so far
2011-05-20 09:06:42,753 - INFO - Processed 900000 reads so far
2011-05-20 09:06:49,634 - INFO - Processed 1000000 reads so far
2011-05-20 09:06:59,864 - INFO - Processed 1100000 reads so far
2011-05-20 09:07:10,587 - INFO - Processed 1200000 reads so far
2011-05-20 09:07:21,462 - INFO - Processed 1300000 reads so far
2011-05-20 09:07:30,647 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:22990069-43010069
2011-05-20 09:07:32,260 - INFO - Processed 1400000 reads so far
2011-05-20 09:07:43,565 - INFO - Processed 1500000 reads so far
2011-05-20 09:07:54,314 - INFO - Processed 1600000 reads so far
2011-05-20 09:08:04,081 - INFO - Processed 1700000 reads so far
2011-05-20 09:08:14,222 - INFO - Processed 1800000 reads so far
2011-05-20 09:08:22,733 - INFO - Processed 1900000 reads so far
2011-05-20 09:08:32,693 - INFO - Processed 2000000 reads so far
2011-05-20 09:08:41,605 - INFO - Processed 2100000 reads so far
2011-05-20 09:08:50,881 - INFO - Processed 2200000 reads so far
2011-05-20 09:09:00,949 - INFO - Processed 2300000 reads so far
2011-05-20 09:09:10,046 - INFO - Processed 2400000 reads so far
2011-05-20 09:09:20,672 - INFO - Processed 2500000 reads so far
2011-05-20 09:09:32,815 - INFO - Processed 2600000 reads so far
2011-05-20 09:09:42,003 - INFO - Processed 2700000 reads so far
2011-05-20 09:09:43,953 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:42990116-63010116
2011-05-20 09:09:52,071 - INFO - Processed 2800000 reads so far
2011-05-20 09:10:00,780 - INFO - Processed 2900000 reads so far
2011-05-20 09:10:10,226 - INFO - Processed 3000000 reads so far
2011-05-20 09:10:19,770 - INFO - Processed 3100000 reads so far
2011-05-20 09:10:28,247 - INFO - Processed 3200000 reads so far
2011-05-20 09:10:36,638 - INFO - Processed 3300000 reads so far
2011-05-20 09:10:44,799 - INFO - Processed 3400000 reads so far
2011-05-20 09:10:52,930 - INFO - Processed 3500000 reads so far
2011-05-20 09:11:03,927 - INFO - Processed 3600000 reads so far
2011-05-20 09:11:14,222 - INFO - Processed 3700000 reads so far
2011-05-20 09:11:23,525 - INFO - Processed 3800000 reads so far
2011-05-20 09:11:32,833 - INFO - Processed 3900000 reads so far
2011-05-20 09:11:42,753 - INFO - Processed 4000000 reads so far
2011-05-20 09:11:49,354 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:62990117-83010117
2011-05-20 09:11:54,604 - INFO - Processed 4100000 reads so far
2011-05-20 09:12:03,196 - INFO - Processed 4200000 reads so far
2011-05-20 09:12:11,763 - INFO - Processed 4300000 reads so far
2011-05-20 09:12:21,010 - INFO - Processed 4400000 reads so far
2011-05-20 09:12:32,139 - INFO - Processed 4500000 reads so far
2011-05-20 09:12:42,980 - INFO - Processed 4600000 reads so far
2011-05-20 09:12:54,065 - INFO - Processed 4700000 reads so far
2011-05-20 09:13:03,941 - INFO - Processed 4800000 reads so far
2011-05-20 09:13:14,321 - INFO - Processed 4900000 reads so far
2011-05-20 09:13:26,513 - INFO - Processed 5000000 reads so far
2011-05-20 09:13:37,447 - INFO - Processed 5100000 reads so far
2011-05-20 09:13:48,425 - INFO - Processed 5200000 reads so far
2011-05-20 09:13:57,625 - INFO - Processed 5300000 reads so far
2011-05-20 09:14:08,307 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:82990129-103010129
2011-05-20 09:14:09,777 - INFO - Processed 5400000 reads so far
2011-05-20 09:14:19,745 - INFO - Processed 5500000 reads so far
2011-05-20 09:14:30,561 - INFO - Processed 5600000 reads so far
2011-05-20 09:14:41,131 - INFO - Processed 5700000 reads so far
2011-05-20 09:14:50,078 - INFO - Processed 5800000 reads so far
2011-05-20 09:14:59,359 - INFO - Processed 5900000 reads so far
2011-05-20 09:15:09,042 - INFO - Processed 6000000 reads so far
2011-05-20 09:15:18,213 - INFO - Processed 6100000 reads so far
2011-05-20 09:15:29,330 - INFO - Processed 6200000 reads so far
2011-05-20 09:15:39,550 - INFO - Processed 6300000 reads so far
2011-05-20 09:15:50,618 - INFO - Processed 6400000 reads so far
2011-05-20 09:16:00,342 - INFO - Processed 6500000 reads so far
2011-05-20 09:16:10,961 - INFO - Processed 6600000 reads so far
2011-05-20 09:16:19,711 - INFO - Processed 6700000 reads so far
2011-05-20 09:16:28,827 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:102990148-123010148
2011-05-20 09:16:35,337 - INFO - Processed 6800000 reads so far
2011-05-20 09:16:47,138 - INFO - Processed 6900000 reads so far
2011-05-20 09:16:59,139 - INFO - Processed 7000000 reads so far
2011-05-20 09:17:11,741 - INFO - Processed 7100000 reads so far
2011-05-20 09:17:22,964 - INFO - Processed 7200000 reads so far
2011-05-20 09:17:34,221 - INFO - Processed 7300000 reads so far
2011-05-20 09:17:45,437 - INFO - Processed 7400000 reads so far
2011-05-20 09:17:56,361 - INFO - Processed 7500000 reads so far
2011-05-20 09:18:07,674 - INFO - Processed 7600000 reads so far
2011-05-20 09:18:20,947 - INFO - Processed 7700000 reads so far
2011-05-20 09:18:32,098 - INFO - Processed 7800000 reads so far
2011-05-20 09:18:43,307 - INFO - Processed 7900000 reads so far
2011-05-20 09:18:56,902 - INFO - Processed 8000000 reads so far
2011-05-20 09:19:03,811 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:122990158-143010158
2011-05-20 09:19:08,150 - INFO - Processed 8100000 reads so far
2011-05-20 09:19:18,329 - INFO - Processed 8200000 reads so far
2011-05-20 09:19:28,058 - INFO - Processed 8300000 reads so far
2011-05-20 09:19:37,358 - INFO - Processed 8400000 reads so far
2011-05-20 09:19:48,100 - INFO - Processed 8500000 reads so far
2011-05-20 09:19:50,682 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:2990002-23010002
2011-05-20 09:19:58,293 - INFO - Processed 8600000 reads so far
2011-05-20 09:20:09,411 - INFO - Processed 8700000 reads so far
2011-05-20 09:20:20,183 - INFO - Processed 8800000 reads so far
2011-05-20 09:20:30,499 - INFO - Processed 8900000 reads so far
2011-05-20 09:20:39,494 - INFO - Processed 9000000 reads so far
2011-05-20 09:20:49,002 - INFO - Processed 9100000 reads so far
2011-05-20 09:20:59,204 - INFO - Processed 9200000 reads so far
2011-05-20 09:21:08,978 - INFO - Processed 9300000 reads so far
2011-05-20 09:21:19,055 - INFO - Processed 9400000 reads so far
2011-05-20 09:21:27,966 - INFO - Processed 9500000 reads so far
2011-05-20 09:21:37,865 - INFO - Processed 9600000 reads so far
2011-05-20 09:21:48,095 - INFO - Processed 9700000 reads so far
2011-05-20 09:21:56,309 - INFO - Processed 9800000 reads so far
2011-05-20 09:22:05,269 - INFO - Processed 9900000 reads so far
2011-05-20 09:22:16,329 - INFO - Processed 10000000 reads so far
2011-05-20 09:22:27,761 - INFO - Processed 10100000 reads so far
2011-05-20 09:22:30,566 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:22990009-43010009
2011-05-20 09:22:37,781 - INFO - Processed 10200000 reads so far
2011-05-20 09:22:47,339 - INFO - Processed 10300000 reads so far
2011-05-20 09:22:55,795 - INFO - Processed 10400000 reads so far
2011-05-20 09:23:04,151 - INFO - Processed 10500000 reads so far
2011-05-20 09:23:14,377 - INFO - Processed 10600000 reads so far
2011-05-20 09:23:27,629 - INFO - Processed 10700000 reads so far
2011-05-20 09:23:38,911 - INFO - Processed 10800000 reads so far
2011-05-20 09:23:49,670 - INFO - Processed 10900000 reads so far
2011-05-20 09:24:00,339 - INFO - Processed 11000000 reads so far
2011-05-20 09:24:11,877 - INFO - Processed 11100000 reads so far
2011-05-20 09:24:23,005 - INFO - Processed 11200000 reads so far
2011-05-20 09:24:33,970 - INFO - Processed 11300000 reads so far
2011-05-20 09:24:45,890 - INFO - Processed 11400000 reads so far
2011-05-20 09:24:52,505 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:42990028-63010028
2011-05-20 09:24:57,194 - INFO - Processed 11500000 reads so far
2011-05-20 09:25:08,243 - INFO - Processed 11600000 reads so far
2011-05-20 09:25:21,885 - INFO - Processed 11700000 reads so far
2011-05-20 09:25:32,605 - INFO - Processed 11800000 reads so far
2011-05-20 09:25:44,507 - INFO - Processed 11900000 reads so far
2011-05-20 09:25:56,909 - INFO - Processed 12000000 reads so far
2011-05-20 09:26:09,252 - INFO - Processed 12100000 reads so far
2011-05-20 09:26:20,181 - INFO - Processed 12200000 reads so far
2011-05-20 09:26:32,029 - INFO - Processed 12300000 reads so far
2011-05-20 09:26:44,418 - INFO - Processed 12400000 reads so far
2011-05-20 09:26:56,325 - INFO - Processed 12500000 reads so far
2011-05-20 09:27:28,166 - INFO - Processed 12600000 reads so far
2011-05-20 09:27:52,290 - INFO - Processed 12700000 reads so far
2011-05-20 09:28:04,415 - INFO - Processed 12800000 reads so far
2011-05-20 09:28:08,396 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:62990032-83010032
2011-05-20 09:28:16,732 - INFO - Processed 12900000 reads so far
2011-05-20 09:28:26,594 - INFO - Processed 13000000 reads so far
2011-05-20 09:28:36,228 - INFO - Processed 13100000 reads so far
2011-05-20 09:28:44,419 - INFO - Processed 13200000 reads so far
2011-05-20 09:28:55,723 - INFO - Processed 13300000 reads so far
2011-05-20 09:29:11,623 - INFO - Processed 13400000 reads so far
2011-05-20 09:29:22,728 - INFO - Processed 13500000 reads so far
2011-05-20 09:29:31,480 - INFO - Processed 13600000 reads so far
2011-05-20 09:29:39,386 - INFO - Processed 13700000 reads so far
2011-05-20 09:29:49,435 - INFO - Processed 13800000 reads so far
2011-05-20 09:29:59,143 - INFO - Processed 13900000 reads so far
2011-05-20 09:30:10,451 - INFO - Processed 14000000 reads so far
2011-05-20 09:30:18,990 - INFO - Processed 14100000 reads so far
2011-05-20 09:30:29,791 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:82990036-103010036
2011-05-20 09:30:31,114 - INFO - Processed 14200000 reads so far
2011-05-20 09:30:42,556 - INFO - Processed 14300000 reads so far
2011-05-20 09:30:52,426 - INFO - Processed 14400000 reads so far
2011-05-20 09:31:03,562 - INFO - Processed 14500000 reads so far
2011-05-20 09:31:14,256 - INFO - Processed 14600000 reads so far
2011-05-20 09:31:25,387 - INFO - Processed 14700000 reads so far
2011-05-20 09:31:39,746 - INFO - Processed 14800000 reads so far
2011-05-20 09:31:51,237 - INFO - Processed 14900000 reads so far
2011-05-20 09:32:02,984 - INFO - Processed 15000000 reads so far
2011-05-20 09:32:15,229 - INFO - Processed 15100000 reads so far
2011-05-20 09:32:26,853 - INFO - Processed 15200000 reads so far
2011-05-20 09:32:35,813 - INFO - Processed 15300000 reads so far
2011-05-20 09:32:45,210 - INFO - Processed 15400000 reads so far
2011-05-20 09:32:53,159 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:102990105-123010105
2011-05-20 09:32:53,911 - INFO - Processed 15500000 reads so far
2011-05-20 09:33:03,179 - INFO - Processed 15600000 reads so far
2011-05-20 09:33:13,425 - INFO - Processed 15700000 reads so far
2011-05-20 09:33:23,346 - INFO - Processed 15800000 reads so far
2011-05-20 09:33:31,757 - INFO - Processed 15900000 reads so far
2011-05-20 09:33:42,952 - INFO - Processed 16000000 reads so far
2011-05-20 09:33:56,302 - INFO - Processed 16100000 reads so far
2011-05-20 09:34:06,747 - INFO - Processed 16200000 reads so far
2011-05-20 09:34:16,971 - INFO - Processed 16300000 reads so far
2011-05-20 09:34:29,427 - INFO - Processed 16400000 reads so far
2011-05-20 09:34:38,984 - INFO - Processed 16500000 reads so far
2011-05-20 09:34:51,174 - INFO - Processed 16600000 reads so far
2011-05-20 09:35:01,845 - INFO - Processed 16700000 reads so far
2011-05-20 09:35:06,478 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:2990044-23010044
2011-05-20 09:35:11,105 - INFO - Processed 16800000 reads so far
2011-05-20 09:35:20,234 - INFO - Processed 16900000 reads so far
2011-05-20 09:35:29,003 - INFO - Processed 17000000 reads so far
2011-05-20 09:35:39,285 - INFO - Processed 17100000 reads so far
2011-05-20 09:35:52,989 - INFO - Processed 17200000 reads so far
2011-05-20 09:36:03,578 - INFO - Processed 17300000 reads so far
2011-05-20 09:36:14,086 - INFO - Processed 17400000 reads so far
2011-05-20 09:36:22,501 - INFO - Processed 17500000 reads so far
2011-05-20 09:36:34,368 - INFO - Processed 17600000 reads so far
2011-05-20 09:36:44,971 - INFO - Processed 17700000 reads so far
2011-05-20 09:36:56,225 - INFO - Processed 17800000 reads so far
2011-05-20 09:37:07,577 - INFO - Processed 17900000 reads so far
2011-05-20 09:37:20,120 - INFO - Processed 18000000 reads so far
2011-05-20 09:37:34,356 - INFO - Processed 18100000 reads so far
2011-05-20 09:37:43,332 - INFO - Processed 18200000 reads so far
2011-05-20 09:37:50,958 - INFO - Processed 18300000 reads so far
2011-05-20 09:38:00,881 - INFO - Processed 18400000 reads so far
2011-05-20 09:38:07,823 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:22990185-43010185
2011-05-20 09:38:10,025 - INFO - Processed 18500000 reads so far
2011-05-20 09:38:19,191 - INFO - Processed 18600000 reads so far
2011-05-20 09:38:28,932 - INFO - Processed 18700000 reads so far
2011-05-20 09:38:38,336 - INFO - Processed 18800000 reads so far
2011-05-20 09:38:50,060 - INFO - Processed 18900000 reads so far
2011-05-20 09:39:03,011 - INFO - Processed 19000000 reads so far
2011-05-20 09:39:11,737 - INFO - Processed 19100000 reads so far
2011-05-20 09:39:24,342 - INFO - Processed 19200000 reads so far
2011-05-20 09:39:34,660 - INFO - Processed 19300000 reads so far
2011-05-20 09:39:44,101 - INFO - Processed 19400000 reads so far
2011-05-20 09:39:55,778 - INFO - Processed 19500000 reads so far
2011-05-20 09:40:05,833 - INFO - Processed 19600000 reads so far
2011-05-20 09:40:15,890 - INFO - Processed 19700000 reads so far
2011-05-20 09:40:20,484 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:42990202-63010202
2011-05-20 09:40:25,155 - INFO - Processed 19800000 reads so far
2011-05-20 09:40:35,373 - INFO - Processed 19900000 reads so far
2011-05-20 09:40:45,753 - INFO - Processed 20000000 reads so far
2011-05-20 09:40:55,190 - INFO - Processed 20100000 reads so far
2011-05-20 09:41:05,333 - INFO - Processed 20200000 reads so far
2011-05-20 09:41:15,521 - INFO - Processed 20300000 reads so far
2011-05-20 09:41:26,138 - INFO - Processed 20400000 reads so far
2011-05-20 09:41:36,642 - INFO - Processed 20500000 reads so far
2011-05-20 09:41:47,224 - INFO - Processed 20600000 reads so far
2011-05-20 09:41:56,879 - INFO - Processed 20700000 reads so far
2011-05-20 09:42:04,935 - INFO - Processed 20800000 reads so far
2011-05-20 09:42:15,533 - INFO - Processed 20900000 reads so far
2011-05-20 09:42:24,660 - INFO - Processed 21000000 reads so far
2011-05-20 09:42:29,600 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:62990289-83010289
2011-05-20 09:42:36,623 - INFO - Processed 21100000 reads so far
2011-05-20 09:42:45,755 - INFO - Processed 21200000 reads so far
2011-05-20 09:42:58,240 - INFO - Processed 21300000 reads so far
2011-05-20 09:43:06,113 - INFO - Processed 21400000 reads so far
2011-05-20 09:43:16,107 - INFO - Processed 21500000 reads so far
2011-05-20 09:43:28,057 - INFO - Processed 21600000 reads so far
2011-05-20 09:43:38,430 - INFO - Processed 21700000 reads so far
2011-05-20 09:43:48,038 - INFO - Processed 21800000 reads so far
2011-05-20 09:43:55,121 - INFO - Processed 21900000 reads so far
2011-05-20 09:44:05,237 - INFO - Processed 22000000 reads so far
2011-05-20 09:44:13,310 - INFO - Processed 22100000 reads so far
2011-05-20 09:44:23,370 - INFO - Processed 22200000 reads so far
2011-05-20 09:44:33,582 - INFO - Processed 22300000 reads so far
2011-05-20 09:44:42,140 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:82990339-103010339
2011-05-20 09:44:43,684 - INFO - Processed 22400000 reads so far
2011-05-20 09:44:54,616 - INFO - Processed 22500000 reads so far
2011-05-20 09:45:03,185 - INFO - Processed 22600000 reads so far
2011-05-20 09:45:12,271 - INFO - Processed 22700000 reads so far
2011-05-20 09:45:22,816 - INFO - Processed 22800000 reads so far
2011-05-20 09:45:31,190 - INFO - Processed 22900000 reads so far
2011-05-20 09:45:53,985 - INFO - Processed 23000000 reads so far
2011-05-20 09:46:02,547 - INFO - Processed 23100000 reads so far
2011-05-20 09:46:10,879 - INFO - Processed 23200000 reads so far
2011-05-20 09:46:19,839 - INFO - Processed 23300000 reads so far
2011-05-20 09:46:29,973 - INFO - Processed 23400000 reads so far
2011-05-20 09:46:37,587 - INFO - Processed 23500000 reads so far
2011-05-20 09:46:48,118 - INFO - Processed 23600000 reads so far
2011-05-20 09:46:57,921 - INFO - Processed 23700000 reads so far
2011-05-20 09:47:01,267 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:102990346-123010346
2011-05-20 09:47:08,442 - INFO - Processed 23800000 reads so far
2011-05-20 09:47:17,667 - INFO - Processed 23900000 reads so far
2011-05-20 09:47:27,060 - INFO - Processed 24000000 reads so far
2011-05-20 09:47:35,493 - INFO - Processed 24100000 reads so far
2011-05-20 09:47:44,184 - INFO - Processed 24200000 reads so far
2011-05-20 09:47:54,751 - INFO - Processed 24300000 reads so far
2011-05-20 09:48:05,510 - INFO - Processed 24400000 reads so far
2011-05-20 09:48:17,131 - INFO - Processed 24500000 reads so far
2011-05-20 09:48:26,416 - INFO - Processed 24600000 reads so far
2011-05-20 09:48:36,791 - INFO - Processed 24700000 reads so far
2011-05-20 09:48:46,959 - INFO - Processed 24800000 reads so far
2011-05-20 09:48:56,961 - INFO - Processed 24900000 reads so far
2011-05-20 09:49:06,919 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:2989999-23009999
2011-05-20 09:49:07,502 - INFO - Processed 25000000 reads so far
2011-05-20 09:49:17,113 - INFO - Processed 25100000 reads so far
2011-05-20 09:49:27,222 - INFO - Processed 25200000 reads so far
2011-05-20 09:49:35,693 - INFO - Processed 25300000 reads so far
2011-05-20 09:49:46,570 - INFO - Processed 25400000 reads so far
2011-05-20 09:49:58,336 - INFO - Processed 25500000 reads so far
2011-05-20 09:50:12,243 - INFO - Processed 25600000 reads so far
2011-05-20 09:50:23,714 - INFO - Processed 25700000 reads so far
2011-05-20 09:50:35,829 - INFO - Processed 25800000 reads so far
2011-05-20 09:50:46,551 - INFO - Processed 25900000 reads so far
2011-05-20 09:50:58,542 - INFO - Processed 26000000 reads so far
2011-05-20 09:51:08,891 - INFO - Processed 26100000 reads so far
2011-05-20 09:51:19,980 - INFO - Processed 26200000 reads so far
2011-05-20 09:51:31,121 - INFO - Processed 26300000 reads so far
2011-05-20 09:51:35,545 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:22990044-43010044
2011-05-20 09:51:43,697 - INFO - Processed 26400000 reads so far
2011-05-20 09:51:55,066 - INFO - Processed 26500000 reads so far
2011-05-20 09:52:06,034 - INFO - Processed 26600000 reads so far
2011-05-20 09:52:15,844 - INFO - Processed 26700000 reads so far
2011-05-20 09:52:23,911 - INFO - Processed 26800000 reads so far
2011-05-20 09:52:33,018 - INFO - Processed 26900000 reads so far
2011-05-20 09:52:42,214 - INFO - Processed 27000000 reads so far
2011-05-20 09:52:49,099 - INFO - Processed 27100000 reads so far
2011-05-20 09:52:56,770 - INFO - Processed 27200000 reads so far
2011-05-20 09:53:04,488 - INFO - Processed 27300000 reads so far
2011-05-20 09:53:11,921 - INFO - Processed 27400000 reads so far
2011-05-20 09:53:23,869 - INFO - Processed 27500000 reads so far
2011-05-20 09:53:34,829 - INFO - Processed 27600000 reads so far
2011-05-20 09:53:45,749 - INFO - Processed 27700000 reads so far
2011-05-20 09:53:46,786 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:42990053-63010053
2011-05-20 09:53:57,669 - INFO - Processed 27800000 reads so far
2011-05-20 09:54:06,810 - INFO - Processed 27900000 reads so far
2011-05-20 09:54:17,619 - INFO - Processed 28000000 reads so far
2011-05-20 09:54:30,214 - INFO - Processed 28100000 reads so far
2011-05-20 09:54:42,261 - INFO - Processed 28200000 reads so far
2011-05-20 09:54:53,163 - INFO - Processed 28300000 reads so far
2011-05-20 09:55:05,837 - INFO - Processed 28400000 reads so far
2011-05-20 09:55:16,852 - INFO - Processed 28500000 reads so far
2011-05-20 09:55:27,812 - INFO - Processed 28600000 reads so far
2011-05-20 09:55:38,916 - INFO - Processed 28700000 reads so far
2011-05-20 09:55:49,914 - INFO - Processed 28800000 reads so far
2011-05-20 09:56:00,952 - INFO - Processed 28900000 reads so far
2011-05-20 09:56:12,791 - INFO - Processed 29000000 reads so far
2011-05-20 09:56:21,851 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:62990084-83010084
2011-05-20 09:56:24,298 - INFO - Processed 29100000 reads so far
2011-05-20 09:56:35,172 - INFO - Processed 29200000 reads so far
2011-05-20 09:56:48,031 - INFO - Processed 29300000 reads so far
2011-05-20 09:56:59,000 - INFO - Processed 29400000 reads so far
2011-05-20 09:57:10,222 - INFO - Processed 29500000 reads so far
2011-05-20 09:57:21,847 - INFO - Processed 29600000 reads so far
2011-05-20 09:57:33,435 - INFO - Processed 29700000 reads so far
2011-05-20 09:57:43,944 - INFO - Processed 29800000 reads so far
2011-05-20 09:57:56,107 - INFO - Processed 29900000 reads so far
2011-05-20 09:58:04,333 - INFO - Processed 30000000 reads so far
2011-05-20 09:58:13,841 - INFO - Processed 30100000 reads so far
2011-05-20 09:58:21,151 - INFO - Processed 30200000 reads so far
2011-05-20 09:58:29,011 - INFO - Processed 30300000 reads so far
2011-05-20 09:58:39,436 - INFO - Processed 30400000 reads so far
2011-05-20 09:58:45,099 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:82990090-103010090
2011-05-20 09:58:50,786 - INFO - Processed 30500000 reads so far
2011-05-20 09:59:00,834 - INFO - Processed 30600000 reads so far
2011-05-20 09:59:12,280 - INFO - Processed 30700000 reads so far
2011-05-20 09:59:23,926 - INFO - Processed 30800000 reads so far
2011-05-20 09:59:32,587 - INFO - Processed 30900000 reads so far
2011-05-20 09:59:41,391 - INFO - Processed 31000000 reads so far
2011-05-20 09:59:50,775 - INFO - Processed 31100000 reads so far
2011-05-20 10:00:00,946 - INFO - Processed 31200000 reads so far
2011-05-20 10:00:12,069 - INFO - Processed 31300000 reads so far
2011-05-20 10:00:23,321 - INFO - Processed 31400000 reads so far
2011-05-20 10:00:34,713 - INFO - Processed 31500000 reads so far
2011-05-20 10:00:47,568 - INFO - Processed 31600000 reads so far
2011-05-20 10:00:57,537 - INFO - Processed 31700000 reads so far
2011-05-20 10:01:00,502 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:102990104-123010104
2011-05-20 10:01:05,396 - INFO - Processed 31800000 reads so far
2011-05-20 10:01:13,663 - INFO - Processed 31900000 reads so far
2011-05-20 10:01:23,610 - INFO - Processed 32000000 reads so far
2011-05-20 10:01:31,393 - INFO - Processed 32100000 reads so far
2011-05-20 10:01:42,430 - INFO - Processed 32200000 reads so far
2011-05-20 10:01:53,770 - INFO - Processed 32300000 reads so far
2011-05-20 10:02:03,818 - INFO - Processed 32400000 reads so far
2011-05-20 10:02:14,647 - INFO - Processed 32500000 reads so far
2011-05-20 10:02:24,865 - INFO - Processed 32600000 reads so far
2011-05-20 10:02:35,075 - INFO - Processed 32700000 reads so far
2011-05-20 10:02:44,762 - INFO - Processed 32800000 reads so far
2011-05-20 10:02:52,550 - INFO - Processed 32900000 reads so far
2011-05-20 10:02:53,324 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13_random:0-20010000
2011-05-20 10:02:54,831 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:2990039-23010039
2011-05-20 10:03:04,837 - INFO - Processed 33000000 reads so far
2011-05-20 10:03:16,632 - INFO - Processed 33100000 reads so far
2011-05-20 10:03:25,623 - INFO - Processed 33200000 reads so far
2011-05-20 10:03:34,827 - INFO - Processed 33300000 reads so far
2011-05-20 10:03:44,401 - INFO - Processed 33400000 reads so far
2011-05-20 10:03:51,109 - INFO - Processed 33500000 reads so far
2011-05-20 10:04:00,789 - INFO - Processed 33600000 reads so far
2011-05-20 10:04:09,502 - INFO - Processed 33700000 reads so far
2011-05-20 10:04:19,002 - INFO - Processed 33800000 reads so far
2011-05-20 10:04:27,238 - INFO - Processed 33900000 reads so far
2011-05-20 10:04:34,701 - INFO - Processed 34000000 reads so far
2011-05-20 10:04:45,888 - INFO - Processed 34100000 reads so far
2011-05-20 10:04:55,788 - INFO - Processed 34200000 reads so far
2011-05-20 10:04:56,791 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:22990072-43010072
2011-05-20 10:05:06,221 - INFO - Processed 34300000 reads so far
2011-05-20 10:05:16,720 - INFO - Processed 34400000 reads so far
2011-05-20 10:05:26,270 - INFO - Processed 34500000 reads so far
2011-05-20 10:05:34,436 - INFO - Processed 34600000 reads so far
2011-05-20 10:05:41,801 - INFO - Processed 34700000 reads so far
2011-05-20 10:05:53,459 - INFO - Processed 34800000 reads so far
2011-05-20 10:06:02,876 - INFO - Processed 34900000 reads so far
2011-05-20 10:06:12,713 - INFO - Processed 35000000 reads so far
2011-05-20 10:06:22,264 - INFO - Processed 35100000 reads so far
2011-05-20 10:06:30,922 - INFO - Processed 35200000 reads so far
2011-05-20 10:06:40,723 - INFO - Processed 35300000 reads so far
2011-05-20 10:06:48,491 - INFO - Processed 35400000 reads so far
2011-05-20 10:06:56,847 - INFO - Processed 35500000 reads so far
2011-05-20 10:07:05,801 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:42990074-63010074
2011-05-20 10:07:08,717 - INFO - Processed 35600000 reads so far
2011-05-20 10:07:15,589 - INFO - Processed 35700000 reads so far
2011-05-20 10:07:22,235 - INFO - Processed 35800000 reads so far
2011-05-20 10:07:29,991 - INFO - Processed 35900000 reads so far
2011-05-20 10:07:36,833 - INFO - Processed 36000000 reads so far
2011-05-20 10:07:47,895 - INFO - Processed 36100000 reads so far
2011-05-20 10:07:57,156 - INFO - Processed 36200000 reads so far
2011-05-20 10:08:05,370 - INFO - Processed 36300000 reads so far
2011-05-20 10:08:12,657 - INFO - Processed 36400000 reads so far
2011-05-20 10:08:19,642 - INFO - Processed 36500000 reads so far
2011-05-20 10:08:28,575 - INFO - Processed 36600000 reads so far
2011-05-20 10:08:37,169 - INFO - Processed 36700000 reads so far
2011-05-20 10:08:44,456 - INFO - Processed 36800000 reads so far
2011-05-20 10:08:53,246 - INFO - Processed 36900000 reads so far
2011-05-20 10:08:59,081 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:62990098-83010098
2011-05-20 10:09:01,592 - INFO - Processed 37000000 reads so far
2011-05-20 10:09:08,681 - INFO - Processed 37100000 reads so far
2011-05-20 10:09:17,840 - INFO - Processed 37200000 reads so far
2011-05-20 10:09:30,550 - INFO - Processed 37300000 reads so far
2011-05-20 10:09:42,592 - INFO - Processed 37400000 reads so far
2011-05-20 10:09:52,838 - INFO - Processed 37500000 reads so far
2011-05-20 10:10:16,264 - INFO - Processed 37600000 reads so far
2011-05-20 10:10:25,573 - INFO - Processed 37700000 reads so far
2011-05-20 10:10:34,122 - INFO - Processed 37800000 reads so far
2011-05-20 10:10:58,466 - INFO - Processed 37900000 reads so far
2011-05-20 10:11:14,689 - INFO - Processed 38000000 reads so far
2011-05-20 10:11:27,233 - INFO - Processed 38100000 reads so far
2011-05-20 10:11:38,438 - INFO - Processed 38200000 reads so far
2011-05-20 10:11:50,329 - INFO - Processed 38300000 reads so far
2011-05-20 10:11:53,307 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:82990101-103010101
2011-05-20 10:11:59,938 - INFO - Processed 38400000 reads so far
2011-05-20 10:12:08,355 - INFO - Processed 38500000 reads so far
2011-05-20 10:12:17,345 - INFO - Processed 38600000 reads so far
2011-05-20 10:12:27,005 - INFO - Processed 38700000 reads so far
2011-05-20 10:12:36,399 - INFO - Processed 38800000 reads so far
2011-05-20 10:12:46,431 - INFO - Processed 38900000 reads so far
2011-05-20 10:12:54,973 - INFO - Processed 39000000 reads so far
2011-05-20 10:13:04,979 - INFO - Processed 39100000 reads so far
2011-05-20 10:13:18,024 - INFO - Processed 39200000 reads so far
2011-05-20 10:13:27,933 - INFO - Processed 39300000 reads so far
2011-05-20 10:13:40,160 - INFO - Processed 39400000 reads so far
2011-05-20 10:13:49,265 - INFO - Processed 39500000 reads so far
2011-05-20 10:13:54,289 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:102990104-123010104
2011-05-20 10:13:56,496 - INFO - Processed 39600000 reads so far
2011-05-20 10:14:04,219 - INFO - Processed 39700000 reads so far
2011-05-20 10:14:13,087 - INFO - Processed 39800000 reads so far
2011-05-20 10:14:19,912 - INFO - Processed 39900000 reads so far
2011-05-20 10:14:28,042 - INFO - Processed 40000000 reads so far
2011-05-20 10:14:36,053 - INFO - Processed 40100000 reads so far
2011-05-20 10:14:43,469 - INFO - Processed 40200000 reads so far
2011-05-20 10:14:50,507 - INFO - Processed 40300000 reads so far
2011-05-20 10:14:57,719 - INFO - Processed 40400000 reads so far
2011-05-20 10:15:04,682 - INFO - Processed 40500000 reads so far
2011-05-20 10:15:14,715 - INFO - Processed 40600000 reads so far
2011-05-20 10:15:23,358 - INFO - Processed 40700000 reads so far
2011-05-20 10:15:32,114 - INFO - Processed 40800000 reads so far
2011-05-20 10:15:37,197 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:122990115-143010115
2011-05-20 10:15:39,064 - INFO - Processed 40900000 reads so far
2011-05-20 10:15:47,886 - INFO - Processed 41000000 reads so far
2011-05-20 10:15:49,676 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:2990007-23010007
2011-05-20 10:15:56,697 - INFO - Processed 41100000 reads so far
2011-05-20 10:16:04,316 - INFO - Processed 41200000 reads so far
2011-05-20 10:16:16,251 - INFO - Processed 41300000 reads so far
2011-05-20 10:16:24,074 - INFO - Processed 41400000 reads so far
2011-05-20 10:16:33,641 - INFO - Processed 41500000 reads so far
2011-05-20 10:16:43,566 - INFO - Processed 41600000 reads so far
2011-05-20 10:16:50,998 - INFO - Processed 41700000 reads so far
2011-05-20 10:16:58,440 - INFO - Processed 41800000 reads so far
2011-05-20 10:17:06,530 - INFO - Processed 41900000 reads so far
2011-05-20 10:17:13,480 - INFO - Processed 42000000 reads so far
2011-05-20 10:17:21,739 - INFO - Processed 42100000 reads so far
2011-05-20 10:17:31,213 - INFO - Processed 42200000 reads so far
2011-05-20 10:17:41,161 - INFO - Processed 42300000 reads so far
2011-05-20 10:17:44,011 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:22990024-43010024
2011-05-20 10:17:53,149 - INFO - Processed 42400000 reads so far
2011-05-20 10:18:03,762 - INFO - Processed 42500000 reads so far
2011-05-20 10:18:14,942 - INFO - Processed 42600000 reads so far
2011-05-20 10:18:27,707 - INFO - Processed 42700000 reads so far
2011-05-20 10:18:46,170 - INFO - Processed 42800000 reads so far
2011-05-20 10:18:57,573 - INFO - Processed 42900000 reads so far
2011-05-20 10:19:08,069 - INFO - Processed 43000000 reads so far
2011-05-20 10:19:18,611 - INFO - Processed 43100000 reads so far
2011-05-20 10:19:27,043 - INFO - Processed 43200000 reads so far
2011-05-20 10:19:38,574 - INFO - Processed 43300000 reads so far
2011-05-20 10:19:49,537 - INFO - Processed 43400000 reads so far
2011-05-20 10:20:01,209 - INFO - Processed 43500000 reads so far
2011-05-20 10:20:13,117 - INFO - Processed 43600000 reads so far
2011-05-20 10:20:20,121 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:42990073-63010073
2011-05-20 10:20:24,111 - INFO - Processed 43700000 reads so far
2011-05-20 10:20:35,535 - INFO - Processed 43800000 reads so far
2011-05-20 10:20:46,696 - INFO - Processed 43900000 reads so far
2011-05-20 10:20:56,103 - INFO - Processed 44000000 reads so far
2011-05-20 10:21:06,157 - INFO - Processed 44100000 reads so far
2011-05-20 10:21:17,390 - INFO - Processed 44200000 reads so far
2011-05-20 10:21:28,047 - INFO - Processed 44300000 reads so far
2011-05-20 10:21:37,488 - INFO - Processed 44400000 reads so far
2011-05-20 10:21:46,913 - INFO - Processed 44500000 reads so far
2011-05-20 10:21:56,459 - INFO - Processed 44600000 reads so far
2011-05-20 10:22:07,087 - INFO - Processed 44700000 reads so far
2011-05-20 10:22:22,615 - INFO - Processed 44800000 reads so far
2011-05-20 10:22:31,384 - INFO - Processed 44900000 reads so far
2011-05-20 10:22:39,491 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:62990095-83010095
2011-05-20 10:22:40,445 - INFO - Processed 45000000 reads so far
2011-05-20 10:22:49,360 - INFO - Processed 45100000 reads so far
2011-05-20 10:22:58,982 - INFO - Processed 45200000 reads so far
2011-05-20 10:23:06,948 - INFO - Processed 45300000 reads so far
2011-05-20 10:23:15,775 - INFO - Processed 45400000 reads so far
2011-05-20 10:23:24,587 - INFO - Processed 45500000 reads so far
2011-05-20 10:23:33,864 - INFO - Processed 45600000 reads so far
2011-05-20 10:23:43,480 - INFO - Processed 45700000 reads so far
2011-05-20 10:23:51,639 - INFO - Processed 45800000 reads so far
2011-05-20 10:24:02,170 - INFO - Processed 45900000 reads so far
2011-05-20 10:24:11,745 - INFO - Processed 46000000 reads so far
2011-05-20 10:24:20,183 - INFO - Processed 46100000 reads so far
2011-05-20 10:24:28,854 - INFO - Processed 46200000 reads so far
2011-05-20 10:24:37,141 - INFO - Processed 46300000 reads so far
2011-05-20 10:24:45,655 - INFO - Processed 46400000 reads so far
2011-05-20 10:24:45,673 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:82990097-103010097
2011-05-20 10:24:53,394 - INFO - Processed 46500000 reads so far
2011-05-20 10:25:01,912 - INFO - Processed 46600000 reads so far
2011-05-20 10:25:09,890 - INFO - Processed 46700000 reads so far
2011-05-20 10:25:18,487 - INFO - Processed 46800000 reads so far
2011-05-20 10:25:26,782 - INFO - Processed 46900000 reads so far
2011-05-20 10:25:35,607 - INFO - Processed 47000000 reads so far
2011-05-20 10:25:43,495 - INFO - Processed 47100000 reads so far
2011-05-20 10:25:51,258 - INFO - Processed 47200000 reads so far
2011-05-20 10:26:01,258 - INFO - Processed 47300000 reads so far
2011-05-20 10:26:09,440 - INFO - Processed 47400000 reads so far
2011-05-20 10:26:18,561 - INFO - Processed 47500000 reads so far
2011-05-20 10:26:28,910 - INFO - Processed 47600000 reads so far
2011-05-20 10:26:37,939 - INFO - Processed 47700000 reads so far
2011-05-20 10:26:42,252 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:102990111-123010111
2011-05-20 10:26:45,745 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16:2990000-23010000
2011-05-20 10:26:47,594 - INFO - Processed 47800000 reads so far
2011-05-20 10:26:57,059 - INFO - Processed 47900000 reads so far
2011-05-20 10:27:06,783 - INFO - Processed 48000000 reads so far
2011-05-20 10:27:16,178 - INFO - Processed 48100000 reads so far
2011-05-20 10:27:24,080 - INFO - Processed 48200000 reads so far
2011-05-20 10:27:32,899 - INFO - Processed 48300000 reads so far
2011-05-20 10:27:42,227 - INFO - Processed 48400000 reads so far
2011-05-20 10:27:51,636 - INFO - Processed 48500000 reads so far
2011-05-20 10:28:00,458 - INFO - Processed 48600000 reads so far
2011-05-20 10:28:12,527 - INFO - Processed 48700000 reads so far
2011-05-20 10:28:20,556 - INFO - Processed 48800000 reads so far
2011-05-20 10:28:32,793 - INFO - Processed 48900000 reads so far
2011-05-20 10:28:42,721 - INFO - Processed 49000000 reads so far
2011-05-20 10:28:55,683 - INFO - Processed 49100000 reads so far
2011-05-20 10:29:08,805 - INFO - Processed 49200000 reads so far
2011-05-20 10:29:10,432 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16:22990028-43010028
2011-05-20 10:29:18,808 - INFO - Processed 49300000 reads so far
2011-05-20 10:29:29,296 - INFO - Processed 49400000 reads so far
2011-05-20 10:29:40,770 - INFO - Processed 49500000 reads so far
2011-05-20 10:29:52,061 - INFO - Processed 49600000 reads so far
2011-05-20 10:30:02,387 - INFO - Processed 49700000 reads so far
2011-05-20 10:30:13,857 - INFO - Processed 49800000 reads so far
2011-05-20 10:30:22,540 - INFO - Processed 49900000 reads so far
2011-05-20 10:30:31,338 - INFO - Processed 50000000 reads so far
2011-05-20 10:30:41,529 - INFO - Processed 50100000 reads so far
2011-05-20 10:30:53,780 - INFO - Processed 50200000 reads so far
2011-05-20 10:31:04,998 - INFO - Processed 50300000 reads so far
2011-05-20 10:31:14,433 - INFO - Processed 50400000 reads so far
2011-05-20 10:31:27,484 - INFO - Processed 50500000 reads so far
2011-05-20 10:31:36,868 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16:42990034-63010034
2011-05-20 10:31:39,054 - INFO - Processed 50600000 reads so far
2011-05-20 10:31:51,035 - INFO - Processed 50700000 reads so far
2011-05-20 10:32:04,438 - INFO - Processed 50800000 reads so far
2011-05-20 10:32:14,519 - INFO - Processed 50900000 reads so far
2011-05-20 10:32:26,729 - INFO - Processed 51000000 reads so far
2011-05-20 10:32:39,716 - INFO - Processed 51100000 reads so far
2011-05-20 10:32:51,255 - INFO - Processed 51200000 reads so far
2011-05-20 10:33:02,328 - INFO - Processed 51300000 reads so far
2011-05-20 10:33:12,967 - INFO - Processed 51400000 reads so far
2011-05-20 10:33:24,265 - INFO - Processed 51500000 reads so far
2011-05-20 10:33:36,610 - INFO - Processed 51600000 reads so far
2011-05-20 10:33:47,971 - INFO - Processed 51700000 reads so far
2011-05-20 10:33:58,890 - INFO - Processed 51800000 reads so far
2011-05-20 10:34:08,654 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16:62990053-83010053
2011-05-20 10:34:09,037 - INFO - Processed 51900000 reads so far
2011-05-20 10:34:20,891 - INFO - Processed 52000000 reads so far
2011-05-20 10:34:32,334 - INFO - Processed 52100000 reads so far
2011-05-20 10:34:44,084 - INFO - Processed 52200000 reads so far
2011-05-20 10:34:55,341 - INFO - Processed 52300000 reads so far
2011-05-20 10:35:08,959 - INFO - Processed 52400000 reads so far
2011-05-20 10:35:20,151 - INFO - Processed 52500000 reads so far
2011-05-20 10:35:31,299 - INFO - Processed 52600000 reads so far
2011-05-20 10:35:41,491 - INFO - Processed 52700000 reads so far
2011-05-20 10:35:53,769 - INFO - Processed 52800000 reads so far
2011-05-20 10:36:05,549 - INFO - Processed 52900000 reads so far
2011-05-20 10:36:16,660 - INFO - Processed 53000000 reads so far
2011-05-20 10:36:27,607 - INFO - Processed 53100000 reads so far
2011-05-20 10:36:35,091 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16:82990058-103010058
2011-05-20 10:36:40,121 - INFO - Processed 53200000 reads so far
2011-05-20 10:36:51,144 - INFO - Processed 53300000 reads so far
2011-05-20 10:37:02,635 - INFO - Processed 53400000 reads so far
2011-05-20 10:37:13,792 - INFO - Processed 53500000 reads so far
2011-05-20 10:37:25,261 - INFO - Processed 53600000 reads so far
2011-05-20 10:37:35,021 - INFO - Processed 53700000 reads so far
2011-05-20 10:37:46,413 - INFO - Processed 53800000 reads so far
2011-05-20 10:37:57,475 - INFO - Processed 53900000 reads so far
2011-05-20 10:38:07,622 - INFO - Processed 54000000 reads so far
2011-05-20 10:38:18,004 - INFO - Processed 54100000 reads so far
2011-05-20 10:38:25,708 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16_random:0-20010128
2011-05-20 10:38:25,736 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17:2989987-23009987
2011-05-20 10:38:26,214 - INFO - Processed 54200000 reads so far
2011-05-20 10:38:34,525 - INFO - Processed 54300000 reads so far
2011-05-20 10:38:42,962 - INFO - Processed 54400000 reads so far
2011-05-20 10:38:52,149 - INFO - Processed 54500000 reads so far
2011-05-20 10:39:02,057 - INFO - Processed 54600000 reads so far
2011-05-20 10:39:10,269 - INFO - Processed 54700000 reads so far
2011-05-20 10:39:18,802 - INFO - Processed 54800000 reads so far
2011-05-20 10:39:27,614 - INFO - Processed 54900000 reads so far
2011-05-20 10:39:38,965 - INFO - Processed 55000000 reads so far
2011-05-20 10:39:50,843 - INFO - Processed 55100000 reads so far
2011-05-20 10:39:59,484 - INFO - Processed 55200000 reads so far
2011-05-20 10:40:10,141 - INFO - Processed 55300000 reads so far
2011-05-20 10:40:24,596 - INFO - Processed 55400000 reads so far
2011-05-20 10:40:33,762 - INFO - Processed 55500000 reads so far
2011-05-20 10:40:41,344 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17:22989990-43009990
2011-05-20 10:40:45,116 - INFO - Processed 55600000 reads so far
2011-05-20 10:40:54,114 - INFO - Processed 55700000 reads so far
2011-05-20 10:41:05,533 - INFO - Processed 55800000 reads so far
2011-05-20 10:41:13,961 - INFO - Processed 55900000 reads so far
2011-05-20 10:41:25,915 - INFO - Processed 56000000 reads so far
2011-05-20 10:41:34,196 - INFO - Processed 56100000 reads so far
2011-05-20 10:41:44,766 - INFO - Processed 56200000 reads so far
2011-05-20 10:41:56,925 - INFO - Processed 56300000 reads so far
2011-05-20 10:42:07,579 - INFO - Processed 56400000 reads so far
2011-05-20 10:42:17,642 - INFO - Processed 56500000 reads so far
2011-05-20 10:42:28,175 - INFO - Processed 56600000 reads so far
2011-05-20 10:42:36,898 - INFO - Processed 56700000 reads so far
2011-05-20 10:42:47,239 - INFO - Processed 56800000 reads so far
2011-05-20 10:42:57,046 - INFO - Processed 56900000 reads so far
2011-05-20 10:43:06,110 - INFO - Processed 57000000 reads so far
2011-05-20 10:43:07,807 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17:42989996-63009996
2011-05-20 10:43:15,374 - INFO - Processed 57100000 reads so far
2011-05-20 10:43:26,428 - INFO - Processed 57200000 reads so far
2011-05-20 10:43:35,917 - INFO - Processed 57300000 reads so far
2011-05-20 10:43:46,256 - INFO - Processed 57400000 reads so far
2011-05-20 10:44:00,025 - INFO - Processed 57500000 reads so far
2011-05-20 10:44:09,989 - INFO - Processed 57600000 reads so far
2011-05-20 10:44:20,163 - INFO - Processed 57700000 reads so far
2011-05-20 10:44:29,012 - INFO - Processed 57800000 reads so far
2011-05-20 10:44:37,942 - INFO - Processed 57900000 reads so far
2011-05-20 10:44:50,281 - INFO - Processed 58000000 reads so far
2011-05-20 10:45:00,513 - INFO - Processed 58100000 reads so far
2011-05-20 10:45:10,007 - INFO - Processed 58200000 reads so far
2011-05-20 10:45:20,622 - INFO - Processed 58300000 reads so far
2011-05-20 10:45:22,553 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17:62990025-83010025
2011-05-20 10:45:30,485 - INFO - Processed 58400000 reads so far
2011-05-20 10:45:40,344 - INFO - Processed 58500000 reads so far
2011-05-20 10:45:50,594 - INFO - Processed 58600000 reads so far
2011-05-20 10:45:59,441 - INFO - Processed 58700000 reads so far
2011-05-20 10:46:08,767 - INFO - Processed 58800000 reads so far
2011-05-20 10:46:17,363 - INFO - Processed 58900000 reads so far
2011-05-20 10:46:27,694 - INFO - Processed 59000000 reads so far
2011-05-20 10:46:42,239 - INFO - Processed 59100000 reads so far
2011-05-20 10:46:54,301 - INFO - Processed 59200000 reads so far
2011-05-20 10:47:07,272 - INFO - Processed 59300000 reads so far
2011-05-20 10:47:16,130 - INFO - Processed 59400000 reads so far
2011-05-20 10:47:25,914 - INFO - Processed 59500000 reads so far
2011-05-20 10:47:36,802 - INFO - Processed 59600000 reads so far
2011-05-20 10:47:43,690 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17:82990150-103010150
2011-05-20 10:47:46,068 - INFO - Processed 59700000 reads so far
2011-05-20 10:47:57,319 - INFO - Processed 59800000 reads so far
2011-05-20 10:48:08,511 - INFO - Processed 59900000 reads so far
2011-05-20 10:48:18,254 - INFO - Processed 60000000 reads so far
2011-05-20 10:48:27,692 - INFO - Processed 60100000 reads so far
2011-05-20 10:48:38,417 - INFO - Processed 60200000 reads so far
2011-05-20 10:48:49,312 - INFO - Processed 60300000 reads so far
2011-05-20 10:48:57,823 - INFO - Processed 60400000 reads so far
2011-05-20 10:49:08,845 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17_random:0-20010032
2011-05-20 10:49:10,890 - INFO - Processed 60500000 reads so far
2011-05-20 10:49:11,380 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr18:2990008-23010008
2011-05-20 10:49:19,233 - INFO - Processed 60600000 reads so far
2011-05-20 10:49:29,811 - INFO - Processed 60700000 reads so far
2011-05-20 10:49:39,356 - INFO - Processed 60800000 reads so far
2011-05-20 10:49:48,330 - INFO - Processed 60900000 reads so far
2011-05-20 10:50:00,649 - INFO - Processed 61000000 reads so far
2011-05-20 10:50:10,437 - INFO - Processed 61100000 reads so far
2011-05-20 10:50:18,158 - INFO - Processed 61200000 reads so far
2011-05-20 10:50:29,578 - INFO - Processed 61300000 reads so far
2011-05-20 10:50:39,951 - INFO - Processed 61400000 reads so far
2011-05-20 10:50:51,260 - INFO - Processed 61500000 reads so far
2011-05-20 10:50:59,996 - INFO - Processed 61600000 reads so far
2011-05-20 10:51:09,413 - INFO - Processed 61700000 reads so far
2011-05-20 10:51:21,194 - INFO - Processed 61800000 reads so far
2011-05-20 10:51:32,876 - INFO - Processed 61900000 reads so far
2011-05-20 10:51:35,869 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr18:22990011-43010011
2011-05-20 10:51:42,904 - INFO - Processed 62000000 reads so far
2011-05-20 10:51:51,646 - INFO - Processed 62100000 reads so far
2011-05-20 10:52:00,562 - INFO - Processed 62200000 reads so far
2011-05-20 10:52:10,070 - INFO - Processed 62300000 reads so far
2011-05-20 10:52:18,318 - INFO - Processed 62400000 reads so far
2011-05-20 10:52:31,856 - INFO - Processed 62500000 reads so far
2011-05-20 10:52:43,208 - INFO - Processed 62600000 reads so far
2011-05-20 10:52:54,437 - INFO - Processed 62700000 reads so far
2011-05-20 10:53:06,579 - INFO - Processed 62800000 reads so far
2011-05-20 10:53:17,990 - INFO - Processed 62900000 reads so far
2011-05-20 10:53:29,829 - INFO - Processed 63000000 reads so far
2011-05-20 10:53:41,841 - INFO - Processed 63100000 reads so far
2011-05-20 10:53:52,808 - INFO - Processed 63200000 reads so far
2011-05-20 10:54:04,247 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr18:42990017-63010017
2011-05-20 10:54:04,826 - INFO - Processed 63300000 reads so far
2011-05-20 10:54:15,409 - INFO - Processed 63400000 reads so far
2011-05-20 10:54:28,008 - INFO - Processed 63500000 reads so far
2011-05-20 10:54:40,633 - INFO - Processed 63600000 reads so far
2011-05-20 10:54:53,373 - INFO - Processed 63700000 reads so far
2011-05-20 10:55:05,188 - INFO - Processed 63800000 reads so far
2011-05-20 10:55:16,549 - INFO - Processed 63900000 reads so far
2011-05-20 10:55:28,938 - INFO - Processed 64000000 reads so far
2011-05-20 10:55:39,284 - INFO - Processed 64100000 reads so far
2011-05-20 10:55:50,969 - INFO - Processed 64200000 reads so far
2011-05-20 10:56:01,859 - INFO - Processed 64300000 reads so far
2011-05-20 10:56:12,564 - INFO - Processed 64400000 reads so far
2011-05-20 10:56:23,442 - INFO - Processed 64500000 reads so far
2011-05-20 10:56:34,691 - INFO - Processed 64600000 reads so far
2011-05-20 10:56:38,923 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr18:62990018-83010018
2011-05-20 10:56:45,351 - INFO - Processed 64700000 reads so far
2011-05-20 10:56:57,409 - INFO - Processed 64800000 reads so far
2011-05-20 10:57:09,004 - INFO - Processed 64900000 reads so far
2011-05-20 10:57:20,736 - INFO - Processed 65000000 reads so far
2011-05-20 10:57:30,927 - INFO - Processed 65100000 reads so far
2011-05-20 10:57:43,741 - INFO - Processed 65200000 reads so far
2011-05-20 10:57:55,791 - INFO - Processed 65300000 reads so far
2011-05-20 10:58:07,280 - INFO - Processed 65400000 reads so far
2011-05-20 10:58:17,512 - INFO - Processed 65500000 reads so far
2011-05-20 10:58:27,512 - INFO - Processed 65600000 reads so far
2011-05-20 10:58:36,891 - INFO - Processed 65700000 reads so far
2011-05-20 10:58:45,589 - INFO - Processed 65800000 reads so far
2011-05-20 10:58:55,655 - INFO - Processed 65900000 reads so far
2011-05-20 10:59:04,694 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr18:82990054-103010054
2011-05-20 10:59:05,277 - INFO - Processed 66000000 reads so far
2011-05-20 10:59:15,720 - INFO - Processed 66100000 reads so far
2011-05-20 10:59:25,911 - INFO - Processed 66200000 reads so far
2011-05-20 10:59:34,786 - INFO - Processed 66300000 reads so far
2011-05-20 10:59:44,451 - INFO - Processed 66400000 reads so far
2011-05-20 10:59:54,282 - INFO - Processed 66500000 reads so far
2011-05-20 10:59:55,255 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr19:2990006-23010006
2011-05-20 11:00:03,856 - INFO - Processed 66600000 reads so far
2011-05-20 11:00:14,863 - INFO - Processed 66700000 reads so far
2011-05-20 11:00:25,569 - INFO - Processed 66800000 reads so far
2011-05-20 11:00:35,580 - INFO - Processed 66900000 reads so far
2011-05-20 11:00:45,528 - INFO - Processed 67000000 reads so far
2011-05-20 11:00:53,714 - INFO - Processed 67100000 reads so far
2011-05-20 11:01:01,986 - INFO - Processed 67200000 reads so far
2011-05-20 11:01:10,941 - INFO - Processed 67300000 reads so far
2011-05-20 11:01:18,902 - INFO - Processed 67400000 reads so far
2011-05-20 11:01:27,481 - INFO - Processed 67500000 reads so far
2011-05-20 11:01:39,809 - INFO - Processed 67600000 reads so far
2011-05-20 11:01:50,759 - INFO - Processed 67700000 reads so far
2011-05-20 11:01:59,948 - INFO - Processed 67800000 reads so far
2011-05-20 11:02:02,483 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr19:22990017-43010017
2011-05-20 11:02:12,216 - INFO - Processed 67900000 reads so far
2011-05-20 11:02:21,102 - INFO - Processed 68000000 reads so far
2011-05-20 11:02:31,001 - INFO - Processed 68100000 reads so far
2011-05-20 11:02:38,499 - INFO - Processed 68200000 reads so far
2011-05-20 11:02:50,219 - INFO - Processed 68300000 reads so far
2011-05-20 11:02:59,893 - INFO - Processed 68400000 reads so far
2011-05-20 11:03:10,037 - INFO - Processed 68500000 reads so far
2011-05-20 11:03:19,607 - INFO - Processed 68600000 reads so far
2011-05-20 11:03:27,805 - INFO - Processed 68700000 reads so far
2011-05-20 11:03:36,120 - INFO - Processed 68800000 reads so far
2011-05-20 11:03:46,497 - INFO - Processed 68900000 reads so far
2011-05-20 11:03:56,271 - INFO - Processed 69000000 reads so far
2011-05-20 11:04:07,045 - INFO - Processed 69100000 reads so far
2011-05-20 11:04:13,826 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr19:42990073-63010073
2011-05-20 11:04:16,822 - INFO - Processed 69200000 reads so far
2011-05-20 11:04:27,905 - INFO - Processed 69300000 reads so far
2011-05-20 11:04:39,565 - INFO - Processed 69400000 reads so far
2011-05-20 11:04:49,607 - INFO - Processed 69500000 reads so far
2011-05-20 11:05:00,685 - INFO - Processed 69600000 reads so far
2011-05-20 11:05:10,848 - INFO - Processed 69700000 reads so far
2011-05-20 11:05:21,396 - INFO - Processed 69800000 reads so far
2011-05-20 11:05:30,322 - INFO - Processed 69900000 reads so far
2011-05-20 11:05:39,355 - INFO - Processed 70000000 reads so far
2011-05-20 11:05:49,122 - INFO - Processed 70100000 reads so far
2011-05-20 11:05:57,665 - INFO - Processed 70200000 reads so far
2011-05-20 11:06:08,217 - INFO - Processed 70300000 reads so far
2011-05-20 11:06:17,255 - INFO - Processed 70400000 reads so far
2011-05-20 11:06:19,039 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:2989975-23009975
2011-05-20 11:06:26,605 - INFO - Processed 70500000 reads so far
2011-05-20 11:06:34,143 - INFO - Processed 70600000 reads so far
2011-05-20 11:06:43,646 - INFO - Processed 70700000 reads so far
2011-05-20 11:06:53,655 - INFO - Processed 70800000 reads so far
2011-05-20 11:07:02,688 - INFO - Processed 70900000 reads so far
2011-05-20 11:07:11,080 - INFO - Processed 71000000 reads so far
2011-05-20 11:07:20,082 - INFO - Processed 71100000 reads so far
2011-05-20 11:07:29,991 - INFO - Processed 71200000 reads so far
2011-05-20 11:07:38,784 - INFO - Processed 71300000 reads so far
2011-05-20 11:07:47,643 - INFO - Processed 71400000 reads so far
2011-05-20 11:07:57,114 - INFO - Processed 71500000 reads so far
2011-05-20 11:08:07,280 - INFO - Processed 71600000 reads so far
2011-05-20 11:08:15,466 - INFO - Processed 71700000 reads so far
2011-05-20 11:08:21,534 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:22989985-43009985
2011-05-20 11:08:25,096 - INFO - Processed 71800000 reads so far
2011-05-20 11:08:34,709 - INFO - Processed 71900000 reads so far
2011-05-20 11:08:46,935 - INFO - Processed 72000000 reads so far
2011-05-20 11:08:55,789 - INFO - Processed 72100000 reads so far
2011-05-20 11:09:04,955 - INFO - Processed 72200000 reads so far
2011-05-20 11:09:15,862 - INFO - Processed 72300000 reads so far
2011-05-20 11:09:24,697 - INFO - Processed 72400000 reads so far
2011-05-20 11:09:45,602 - INFO - Processed 72500000 reads so far
2011-05-20 11:09:59,732 - INFO - Processed 72600000 reads so far
2011-05-20 11:10:14,458 - INFO - Processed 72700000 reads so far
2011-05-20 11:10:35,632 - INFO - Processed 72800000 reads so far
2011-05-20 11:10:47,411 - INFO - Processed 72900000 reads so far
2011-05-20 11:11:13,727 - INFO - Processed 73000000 reads so far
2011-05-20 11:11:27,177 - INFO - Processed 73100000 reads so far
2011-05-20 11:11:28,818 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:42989986-63009986
2011-05-20 11:11:49,954 - INFO - Processed 73200000 reads so far
2011-05-20 11:12:01,043 - INFO - Processed 73300000 reads so far
2011-05-20 11:12:12,115 - INFO - Processed 73400000 reads so far
2011-05-20 11:12:23,623 - INFO - Processed 73500000 reads so far
2011-05-20 11:12:34,854 - INFO - Processed 73600000 reads so far
2011-05-20 11:12:45,083 - INFO - Processed 73700000 reads so far
2011-05-20 11:12:54,924 - INFO - Processed 73800000 reads so far
2011-05-20 11:13:03,327 - INFO - Processed 73900000 reads so far
2011-05-20 11:13:12,154 - INFO - Processed 74000000 reads so far
2011-05-20 11:13:22,792 - INFO - Processed 74100000 reads so far
2011-05-20 11:13:31,755 - INFO - Processed 74200000 reads so far
2011-05-20 11:13:40,977 - INFO - Processed 74300000 reads so far
2011-05-20 11:13:53,006 - INFO - Processed 74400000 reads so far
2011-05-20 11:13:58,571 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:62989994-83009994
2011-05-20 11:14:03,930 - INFO - Processed 74500000 reads so far
2011-05-20 11:14:16,076 - INFO - Processed 74600000 reads so far
2011-05-20 11:14:24,732 - INFO - Processed 74700000 reads so far
2011-05-20 11:14:35,015 - INFO - Processed 74800000 reads so far
2011-05-20 11:14:45,547 - INFO - Processed 74900000 reads so far
2011-05-20 11:14:55,098 - INFO - Processed 75000000 reads so far
2011-05-20 11:15:05,066 - INFO - Processed 75100000 reads so far
2011-05-20 11:15:17,472 - INFO - Processed 75200000 reads so far
2011-05-20 11:15:28,461 - INFO - Processed 75300000 reads so far
2011-05-20 11:15:38,520 - INFO - Processed 75400000 reads so far
2011-05-20 11:15:49,040 - INFO - Processed 75500000 reads so far
2011-05-20 11:15:56,988 - INFO - Processed 75600000 reads so far
2011-05-20 11:16:04,778 - INFO - Processed 75700000 reads so far
2011-05-20 11:16:13,749 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:82990000-103010000
2011-05-20 11:16:13,920 - INFO - Processed 75800000 reads so far
2011-05-20 11:16:23,812 - INFO - Processed 75900000 reads so far
2011-05-20 11:16:35,215 - INFO - Processed 76000000 reads so far
2011-05-20 11:16:46,078 - INFO - Processed 76100000 reads so far
2011-05-20 11:16:58,469 - INFO - Processed 76200000 reads so far
2011-05-20 11:17:09,185 - INFO - Processed 76300000 reads so far
2011-05-20 11:17:20,334 - INFO - Processed 76400000 reads so far
2011-05-20 11:17:32,372 - INFO - Processed 76500000 reads so far
2011-05-20 11:17:43,746 - INFO - Processed 76600000 reads so far
2011-05-20 11:17:55,166 - INFO - Processed 76700000 reads so far
2011-05-20 11:18:07,377 - INFO - Processed 76800000 reads so far
2011-05-20 11:18:18,726 - INFO - Processed 76900000 reads so far
2011-05-20 11:18:27,017 - INFO - Processed 77000000 reads so far
2011-05-20 11:18:36,740 - INFO - Processed 77100000 reads so far
2011-05-20 11:18:38,567 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:102990010-123010010
2011-05-20 11:19:32,272 - INFO - Processed 77200000 reads so far
2011-05-20 11:19:40,722 - INFO - Processed 77300000 reads so far
2011-05-20 11:19:50,800 - INFO - Processed 77400000 reads so far
2011-05-20 11:20:02,605 - INFO - Processed 77500000 reads so far
2011-05-20 11:20:12,857 - INFO - Processed 77600000 reads so far
2011-05-20 11:20:21,890 - INFO - Processed 77700000 reads so far
2011-05-20 11:20:34,770 - INFO - Processed 77800000 reads so far
2011-05-20 11:20:45,453 - INFO - Processed 77900000 reads so far
2011-05-20 11:20:57,557 - INFO - Processed 78000000 reads so far
2011-05-20 11:21:09,394 - INFO - Processed 78100000 reads so far
2011-05-20 11:21:18,146 - INFO - Processed 78200000 reads so far
2011-05-20 11:21:27,049 - INFO - Processed 78300000 reads so far
2011-05-20 11:21:36,647 - INFO - Processed 78400000 reads so far
2011-05-20 11:21:40,476 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:122990016-143010016
2011-05-20 11:21:46,723 - INFO - Processed 78500000 reads so far
2011-05-20 11:21:55,042 - INFO - Processed 78600000 reads so far
2011-05-20 11:22:03,501 - INFO - Processed 78700000 reads so far
2011-05-20 11:22:12,414 - INFO - Processed 78800000 reads so far
2011-05-20 11:22:22,912 - INFO - Processed 78900000 reads so far
2011-05-20 11:22:34,510 - INFO - Processed 79000000 reads so far
2011-05-20 11:22:46,248 - INFO - Processed 79100000 reads so far
2011-05-20 11:22:54,035 - INFO - Processed 79200000 reads so far
2011-05-20 11:23:02,780 - INFO - Processed 79300000 reads so far
2011-05-20 11:23:12,119 - INFO - Processed 79400000 reads so far
2011-05-20 11:23:19,216 - INFO - Processed 79500000 reads so far
2011-05-20 11:23:27,363 - INFO - Processed 79600000 reads so far
2011-05-20 11:23:35,344 - INFO - Processed 79700000 reads so far
2011-05-20 11:23:43,708 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:142990020-163010020
2011-05-20 11:23:43,880 - INFO - Processed 79800000 reads so far
2011-05-20 11:23:51,870 - INFO - Processed 79900000 reads so far
2011-05-20 11:24:00,873 - INFO - Processed 80000000 reads so far
2011-05-20 11:24:08,631 - INFO - Processed 80100000 reads so far
2011-05-20 11:24:17,505 - INFO - Processed 80200000 reads so far
2011-05-20 11:24:27,485 - INFO - Processed 80300000 reads so far
2011-05-20 11:24:37,873 - INFO - Processed 80400000 reads so far
2011-05-20 11:24:46,066 - INFO - Processed 80500000 reads so far
2011-05-20 11:24:54,343 - INFO - Processed 80600000 reads so far
2011-05-20 11:25:07,131 - INFO - Processed 80700000 reads so far
2011-05-20 11:25:18,453 - INFO - Processed 80800000 reads so far
2011-05-20 11:25:30,167 - INFO - Processed 80900000 reads so far
2011-05-20 11:25:47,265 - INFO - Processed 81000000 reads so far
2011-05-20 11:25:59,325 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:162990032-183010032
2011-05-20 11:25:59,435 - INFO - Processed 81100000 reads so far
2011-05-20 11:26:09,733 - INFO - Processed 81200000 reads so far
2011-05-20 11:26:21,964 - INFO - Processed 81300000 reads so far
2011-05-20 11:26:32,860 - INFO - Processed 81400000 reads so far
2011-05-20 11:26:43,628 - INFO - Processed 81500000 reads so far
2011-05-20 11:26:55,008 - INFO - Processed 81600000 reads so far
2011-05-20 11:27:06,190 - INFO - Processed 81700000 reads so far
2011-05-20 11:27:17,220 - INFO - Processed 81800000 reads so far
2011-05-20 11:27:28,395 - INFO - Processed 81900000 reads so far
2011-05-20 11:27:39,634 - INFO - Processed 82000000 reads so far
2011-05-20 11:27:52,615 - INFO - Processed 82100000 reads so far
2011-05-20 11:28:03,809 - INFO - Processed 82200000 reads so far
2011-05-20 11:28:14,460 - INFO - Processed 82300000 reads so far
2011-05-20 11:28:26,578 - INFO - Processed 82400000 reads so far
2011-05-20 11:28:37,378 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:182990036-203010036
2011-05-20 11:28:37,630 - INFO - Processed 82500000 reads so far
2011-05-20 11:28:48,929 - INFO - Processed 82600000 reads so far
2011-05-20 11:28:59,587 - INFO - Processed 82700000 reads so far
2011-05-20 11:29:11,787 - INFO - Processed 82800000 reads so far
2011-05-20 11:29:22,842 - INFO - Processed 82900000 reads so far
2011-05-20 11:29:34,213 - INFO - Processed 83000000 reads so far
2011-05-20 11:29:46,006 - INFO - Processed 83100000 reads so far
2011-05-20 11:29:58,582 - INFO - Processed 83200000 reads so far
2011-05-20 11:30:09,822 - INFO - Processed 83300000 reads so far
2011-05-20 11:30:21,713 - INFO - Processed 83400000 reads so far
2011-05-20 11:30:28,518 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1_random:0-20010000
2011-05-20 11:30:32,387 - INFO - Processed 83500000 reads so far
2011-05-20 11:30:41,558 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:2990054-23010054
2011-05-20 11:30:42,322 - INFO - Processed 83600000 reads so far
2011-05-20 11:30:53,379 - INFO - Processed 83700000 reads so far
2011-05-20 11:31:04,780 - INFO - Processed 83800000 reads so far
2011-05-20 11:31:16,317 - INFO - Processed 83900000 reads so far
2011-05-20 11:31:29,099 - INFO - Processed 84000000 reads so far
2011-05-20 11:31:41,108 - INFO - Processed 84100000 reads so far
2011-05-20 11:31:53,294 - INFO - Processed 84200000 reads so far
2011-05-20 11:32:04,299 - INFO - Processed 84300000 reads so far
2011-05-20 11:32:15,843 - INFO - Processed 84400000 reads so far
2011-05-20 11:32:26,748 - INFO - Processed 84500000 reads so far
2011-05-20 11:32:37,590 - INFO - Processed 84600000 reads so far
2011-05-20 11:32:48,639 - INFO - Processed 84700000 reads so far
2011-05-20 11:32:57,899 - INFO - Processed 84800000 reads so far
2011-05-20 11:33:08,671 - INFO - Processed 84900000 reads so far
2011-05-20 11:33:16,652 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:22990062-43010062
2011-05-20 11:33:19,306 - INFO - Processed 85000000 reads so far
2011-05-20 11:33:32,453 - INFO - Processed 85100000 reads so far
2011-05-20 11:33:43,387 - INFO - Processed 85200000 reads so far
2011-05-20 11:33:54,232 - INFO - Processed 85300000 reads so far
2011-05-20 11:34:05,446 - INFO - Processed 85400000 reads so far
2011-05-20 11:34:29,430 - INFO - Processed 85500000 reads so far
2011-05-20 11:34:38,940 - INFO - Processed 85600000 reads so far
2011-05-20 11:34:50,746 - INFO - Processed 85700000 reads so far
2011-05-20 11:35:00,797 - INFO - Processed 85800000 reads so far
2011-05-20 11:35:10,698 - INFO - Processed 85900000 reads so far
2011-05-20 11:35:20,389 - INFO - Processed 86000000 reads so far
2011-05-20 11:35:30,641 - INFO - Processed 86100000 reads so far
2011-05-20 11:35:41,582 - INFO - Processed 86200000 reads so far
2011-05-20 11:35:55,993 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:42990114-63010114
2011-05-20 11:35:56,203 - INFO - Processed 86300000 reads so far
2011-05-20 11:36:09,991 - INFO - Processed 86400000 reads so far
2011-05-20 11:36:21,196 - INFO - Processed 86500000 reads so far
2011-05-20 11:36:32,508 - INFO - Processed 86600000 reads so far
2011-05-20 11:36:43,452 - INFO - Processed 86700000 reads so far
2011-05-20 11:36:55,246 - INFO - Processed 86800000 reads so far
2011-05-20 11:37:06,558 - INFO - Processed 86900000 reads so far
2011-05-20 11:37:16,229 - INFO - Processed 87000000 reads so far
2011-05-20 11:37:27,127 - INFO - Processed 87100000 reads so far
2011-05-20 11:37:39,047 - INFO - Processed 87200000 reads so far
2011-05-20 11:37:52,384 - INFO - Processed 87300000 reads so far
2011-05-20 11:38:03,146 - INFO - Processed 87400000 reads so far
2011-05-20 11:38:14,329 - INFO - Processed 87500000 reads so far
2011-05-20 11:38:24,510 - INFO - Processed 87600000 reads so far
2011-05-20 11:38:26,181 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:62990154-83010154
2011-05-20 11:38:35,224 - INFO - Processed 87700000 reads so far
2011-05-20 11:38:45,842 - INFO - Processed 87800000 reads so far
2011-05-20 11:38:57,576 - INFO - Processed 87900000 reads so far
2011-05-20 11:39:08,180 - INFO - Processed 88000000 reads so far
2011-05-20 11:39:22,290 - INFO - Processed 88100000 reads so far
2011-05-20 11:39:33,692 - INFO - Processed 88200000 reads so far
2011-05-20 11:39:47,842 - INFO - Processed 88300000 reads so far
2011-05-20 11:39:59,945 - INFO - Processed 88400000 reads so far
2011-05-20 11:40:11,761 - INFO - Processed 88500000 reads so far
2011-05-20 11:40:24,826 - INFO - Processed 88600000 reads so far
2011-05-20 11:40:40,343 - INFO - Processed 88700000 reads so far
2011-05-20 11:40:55,512 - INFO - Processed 88800000 reads so far
2011-05-20 11:41:06,788 - INFO - Processed 88900000 reads so far
2011-05-20 11:41:13,325 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:82990179-103010179
2011-05-20 11:41:19,787 - INFO - Processed 89000000 reads so far
2011-05-20 11:41:31,543 - INFO - Processed 89100000 reads so far
2011-05-20 11:41:42,487 - INFO - Processed 89200000 reads so far
2011-05-20 11:41:54,201 - INFO - Processed 89300000 reads so far
2011-05-20 11:42:07,367 - INFO - Processed 89400000 reads so far
2011-05-20 11:42:19,340 - INFO - Processed 89500000 reads so far
2011-05-20 11:42:32,080 - INFO - Processed 89600000 reads so far
2011-05-20 11:42:43,845 - INFO - Processed 89700000 reads so far
2011-05-20 11:42:55,319 - INFO - Processed 89800000 reads so far
2011-05-20 11:43:07,953 - INFO - Processed 89900000 reads so far
2011-05-20 11:43:17,505 - INFO - Processed 90000000 reads so far
2011-05-20 11:43:27,334 - INFO - Processed 90100000 reads so far
2011-05-20 11:43:37,540 - INFO - Processed 90200000 reads so far
2011-05-20 11:43:47,595 - INFO - Processed 90300000 reads so far
2011-05-20 11:43:57,096 - INFO - Processed 90400000 reads so far
2011-05-20 11:44:08,275 - INFO - Processed 90500000 reads so far
2011-05-20 11:44:17,358 - INFO - Processed 90600000 reads so far
2011-05-20 11:44:27,756 - INFO - Processed 90700000 reads so far
2011-05-20 11:44:37,516 - INFO - Processed 90800000 reads so far
2011-05-20 11:44:48,988 - INFO - Processed 90900000 reads so far
2011-05-20 11:44:57,026 - INFO - Processed 91000000 reads so far
2011-05-20 11:45:04,831 - INFO - Processed 91100000 reads so far
2011-05-20 11:45:13,926 - INFO - Processed 91200000 reads so far
2011-05-20 11:45:24,475 - INFO - Processed 91300000 reads so far
2011-05-20 11:45:34,107 - INFO - Processed 91400000 reads so far
2011-05-20 11:45:43,814 - INFO - Processed 91500000 reads so far
2011-05-20 11:45:53,181 - INFO - Processed 91600000 reads so far
2011-05-20 11:46:01,265 - INFO - Processed 91700000 reads so far
2011-05-20 11:46:08,461 - INFO - Processed 91800000 reads so far
2011-05-20 11:46:17,443 - INFO - Processed 91900000 reads so far
2011-05-20 11:46:30,324 - INFO - Processed 92000000 reads so far
2011-05-20 11:46:39,826 - INFO - Processed 92100000 reads so far
2011-05-20 11:46:49,905 - INFO - Processed 92200000 reads so far
2011-05-20 11:46:59,444 - INFO - Processed 92300000 reads so far
2011-05-20 11:47:14,485 - INFO - Processed 92400000 reads so far
2011-05-20 11:47:24,869 - INFO - Processed 92500000 reads so far
2011-05-20 11:47:34,879 - INFO - Processed 92600000 reads so far
2011-05-20 11:47:49,585 - INFO - Processed 92700000 reads so far
2011-05-20 11:47:59,138 - INFO - Processed 92800000 reads so far
2011-05-20 11:48:09,235 - INFO - Processed 92900000 reads so far
2011-05-20 11:48:20,962 - INFO - Processed 93000000 reads so far
2011-05-20 11:48:29,918 - INFO - Processed 93100000 reads so far
2011-05-20 11:48:38,955 - INFO - Processed 93200000 reads so far
2011-05-20 11:48:53,024 - INFO - Processed 93300000 reads so far
2011-05-20 11:49:02,694 - INFO - Processed 93400000 reads so far
2011-05-20 11:49:11,537 - INFO - Processed 93500000 reads so far
2011-05-20 11:49:21,953 - INFO - Processed 93600000 reads so far
2011-05-20 11:49:30,857 - INFO - Processed 93700000 reads so far
2011-05-20 11:49:40,425 - INFO - Processed 93800000 reads so far
2011-05-20 11:49:51,240 - INFO - Processed 93900000 reads so far
2011-05-20 11:49:59,719 - INFO - Processed 94000000 reads so far
2011-05-20 11:50:08,189 - INFO - Processed 94100000 reads so far
2011-05-20 11:50:16,738 - INFO - Processed 94200000 reads so far
2011-05-20 11:50:24,988 - INFO - Processed 94300000 reads so far
2011-05-20 11:50:33,487 - INFO - Processed 94400000 reads so far
2011-05-20 11:50:41,552 - INFO - Processed 94500000 reads so far
2011-05-20 11:50:50,706 - INFO - Processed 94600000 reads so far
2011-05-20 11:51:00,123 - INFO - Processed 94700000 reads so far
2011-05-20 11:51:09,641 - INFO - Processed 94800000 reads so far
2011-05-20 11:51:19,903 - INFO - Processed 94900000 reads so far
2011-05-20 11:51:29,720 - INFO - Processed 95000000 reads so far
2011-05-20 11:51:39,506 - INFO - Processed 95100000 reads so far
2011-05-20 11:51:50,762 - INFO - Processed 95200000 reads so far
2011-05-20 11:52:02,019 - INFO - Processed 95300000 reads so far
2011-05-20 11:52:13,043 - INFO - Processed 95400000 reads so far
2011-05-20 11:52:22,546 - INFO - Processed 95500000 reads so far
2011-05-20 11:52:32,476 - INFO - Processed 95600000 reads so far
2011-05-20 11:52:43,504 - INFO - Processed 95700000 reads so far
2011-05-20 11:52:54,438 - INFO - Processed 95800000 reads so far
2011-05-20 11:53:04,917 - INFO - Processed 95900000 reads so far
2011-05-20 11:53:16,282 - INFO - Processed 96000000 reads so far
2011-05-20 11:53:26,752 - INFO - Processed 96100000 reads so far
2011-05-20 11:53:37,888 - INFO - Processed 96200000 reads so far
2011-05-20 11:53:47,679 - INFO - Processed 96300000 reads so far
2011-05-20 11:53:59,293 - INFO - Processed 96400000 reads so far
2011-05-20 11:54:10,548 - INFO - Processed 96500000 reads so far
2011-05-20 11:54:21,748 - INFO - Processed 96600000 reads so far
2011-05-20 11:54:32,569 - INFO - Processed 96700000 reads so far
2011-05-20 11:54:42,786 - INFO - Processed 96800000 reads so far
2011-05-20 11:54:53,644 - INFO - Processed 96900000 reads so far
2011-05-20 11:55:03,306 - INFO - Processed 97000000 reads so far
2011-05-20 11:55:13,270 - INFO - Processed 97100000 reads so far
2011-05-20 11:55:23,235 - INFO - Processed 97200000 reads so far
2011-05-20 11:55:33,178 - INFO - Processed 97300000 reads so far
2011-05-20 11:55:42,049 - INFO - Processed 97400000 reads so far
2011-05-20 11:55:51,339 - INFO - Processed 97500000 reads so far
2011-05-20 11:56:00,780 - INFO - Processed 97600000 reads so far
2011-05-20 11:56:10,971 - INFO - Processed 97700000 reads so far
2011-05-20 11:56:21,934 - INFO - Processed 97800000 reads so far
2011-05-20 11:56:32,186 - INFO - Processed 97900000 reads so far
2011-05-20 11:56:42,617 - INFO - Processed 98000000 reads so far
2011-05-20 11:56:53,928 - INFO - Processed 98100000 reads so far
2011-05-20 11:57:04,090 - INFO - Processed 98200000 reads so far
2011-05-20 11:57:15,502 - INFO - Processed 98300000 reads so far
2011-05-20 11:57:28,255 - INFO - Processed 98400000 reads so far
2011-05-20 11:57:37,856 - INFO - Processed 98500000 reads so far
2011-05-20 11:57:48,527 - INFO - Processed 98600000 reads so far
2011-05-20 11:57:58,959 - INFO - Processed 98700000 reads so far
2011-05-20 11:58:08,555 - INFO - Processed 98800000 reads so far
2011-05-20 11:58:18,469 - INFO - Processed 98900000 reads so far
2011-05-20 11:58:28,120 - INFO - Processed 99000000 reads so far
2011-05-20 11:58:39,981 - INFO - Processed 99100000 reads so far
2011-05-20 11:58:50,662 - INFO - Processed 99200000 reads so far
2011-05-20 11:59:00,748 - INFO - Processed 99300000 reads so far
2011-05-20 11:59:10,073 - INFO - Processed 99400000 reads so far
2011-05-20 11:59:20,696 - INFO - Processed 99500000 reads so far
2011-05-20 11:59:31,511 - INFO - Processed 99600000 reads so far
2011-05-20 11:59:41,635 - INFO - Processed 99700000 reads so far
2011-05-20 11:59:51,781 - INFO - Processed 99800000 reads so far
2011-05-20 12:00:01,708 - INFO - Processed 99900000 reads so far
2011-05-20 12:00:12,635 - INFO - Processed 100000000 reads so far
2011-05-20 12:00:22,459 - INFO - Processed 100100000 reads so far
2011-05-20 12:00:32,985 - INFO - Processed 100200000 reads so far
2011-05-20 12:00:42,710 - INFO - Processed 100300000 reads so far
2011-05-20 12:00:53,222 - INFO - Processed 100400000 reads so far
2011-05-20 12:01:03,894 - INFO - Processed 100500000 reads so far
2011-05-20 12:01:13,721 - INFO - Processed 100600000 reads so far
2011-05-20 12:01:24,611 - INFO - Processed 100700000 reads so far
2011-05-20 12:01:35,146 - INFO - Processed 100800000 reads so far
2011-05-20 12:01:47,224 - INFO - Processed 100900000 reads so far
2011-05-20 12:01:58,946 - INFO - Processed 101000000 reads so far
2011-05-20 12:02:09,099 - INFO - Processed 101100000 reads so far
2011-05-20 12:02:20,105 - INFO - Processed 101200000 reads so far
2011-05-20 12:02:29,635 - INFO - Processed 101300000 reads so far
2011-05-20 12:02:39,524 - INFO - Processed 101400000 reads so far
2011-05-20 12:02:49,519 - INFO - Processed 101500000 reads so far
2011-05-20 12:03:03,191 - INFO - Processed 101600000 reads so far
2011-05-20 12:03:13,308 - INFO - Processed 101700000 reads so far
2011-05-20 12:03:22,978 - INFO - Processed 101800000 reads so far
2011-05-20 12:03:32,811 - INFO - Processed 101900000 reads so far
2011-05-20 12:03:42,845 - INFO - Processed 102000000 reads so far
2011-05-20 12:03:53,571 - INFO - Processed 102100000 reads so far
2011-05-20 12:04:05,410 - INFO - Processed 102200000 reads so far
2011-05-20 12:04:16,341 - INFO - Processed 102300000 reads so far
2011-05-20 12:04:26,643 - INFO - Processed 102400000 reads so far
2011-05-20 12:04:35,479 - INFO - Processed 102500000 reads so far
2011-05-20 12:04:45,396 - INFO - Processed 102600000 reads so far
2011-05-20 12:04:55,323 - INFO - Processed 102700000 reads so far
2011-05-20 12:05:05,555 - INFO - Processed 102800000 reads so far
2011-05-20 12:05:15,463 - INFO - Processed 102900000 reads so far
2011-05-20 12:05:26,067 - INFO - Processed 103000000 reads so far
2011-05-20 12:05:36,521 - INFO - Processed 103100000 reads so far
2011-05-20 12:05:46,540 - INFO - Processed 103200000 reads so far
2011-05-20 12:05:55,653 - INFO - Processed 103300000 reads so far
2011-05-20 12:06:05,687 - INFO - Processed 103400000 reads so far
2011-05-20 12:06:16,371 - INFO - Processed 103500000 reads so far
2011-05-20 12:06:27,467 - INFO - Processed 103600000 reads so far
2011-05-20 12:06:37,098 - INFO - Processed 103700000 reads so far
2011-05-20 12:06:47,562 - INFO - Processed 103800000 reads so far
2011-05-20 12:06:59,418 - INFO - Processed 103900000 reads so far
2011-05-20 12:07:11,965 - INFO - Processed 104000000 reads so far
2011-05-20 12:07:27,958 - INFO - Processed 104100000 reads so far
2011-05-20 12:07:40,304 - INFO - Processed 104200000 reads so far
2011-05-20 12:07:51,280 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:102990181-123010181
2011-05-20 12:07:53,456 - INFO - Processed 104300000 reads so far
2011-05-20 12:08:05,834 - INFO - Processed 104400000 reads so far
2011-05-20 12:08:18,222 - INFO - Processed 104500000 reads so far
2011-05-20 12:08:29,176 - INFO - Processed 104600000 reads so far
2011-05-20 12:08:41,048 - INFO - Processed 104700000 reads so far
2011-05-20 12:08:52,145 - INFO - Processed 104800000 reads so far
2011-05-20 12:09:02,739 - INFO - Processed 104900000 reads so far
2011-05-20 12:09:15,560 - INFO - Processed 105000000 reads so far
2011-05-20 12:09:27,318 - INFO - Processed 105100000 reads so far
2011-05-20 12:09:39,831 - INFO - Processed 105200000 reads so far
2011-05-20 12:09:52,251 - INFO - Processed 105300000 reads so far
2011-05-20 12:10:04,606 - INFO - Processed 105400000 reads so far
2011-05-20 12:10:17,780 - INFO - Processed 105500000 reads so far
2011-05-20 12:10:29,986 - INFO - Processed 105600000 reads so far
2011-05-20 12:10:33,416 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:122990192-143010192
2011-05-20 12:10:42,716 - INFO - Processed 105700000 reads so far
2011-05-20 12:11:03,784 - INFO - Processed 105800000 reads so far
2011-05-20 12:11:18,787 - INFO - Processed 105900000 reads so far
2011-05-20 12:11:31,488 - INFO - Processed 106000000 reads so far
2011-05-20 12:11:54,013 - INFO - Processed 106100000 reads so far
2011-05-20 12:12:07,073 - INFO - Processed 106200000 reads so far
2011-05-20 12:12:23,118 - INFO - Processed 106300000 reads so far
2011-05-20 12:12:35,783 - INFO - Processed 106400000 reads so far
2011-05-20 12:12:46,345 - INFO - Processed 106500000 reads so far
2011-05-20 12:12:56,588 - INFO - Processed 106600000 reads so far
2011-05-20 12:13:14,042 - INFO - Processed 106700000 reads so far
2011-05-20 12:13:24,677 - INFO - Processed 106800000 reads so far
2011-05-20 12:13:38,371 - INFO - Processed 106900000 reads so far
2011-05-20 12:13:58,791 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:142990218-163010218
2011-05-20 12:13:59,174 - INFO - Processed 107000000 reads so far
2011-05-20 12:14:09,399 - INFO - Processed 107100000 reads so far
2011-05-20 12:14:21,699 - INFO - Processed 107200000 reads so far
2011-05-20 12:14:38,157 - INFO - Processed 107300000 reads so far
2011-05-20 12:14:51,658 - INFO - Processed 107400000 reads so far
2011-05-20 12:15:11,455 - INFO - Processed 107500000 reads so far
2011-05-20 12:15:24,653 - INFO - Processed 107600000 reads so far
2011-05-20 12:15:37,553 - INFO - Processed 107700000 reads so far
2011-05-20 12:15:52,389 - INFO - Processed 107800000 reads so far
2011-05-20 12:16:04,584 - INFO - Processed 107900000 reads so far
2011-05-20 12:16:16,303 - INFO - Processed 108000000 reads so far
2011-05-20 12:16:28,704 - INFO - Processed 108100000 reads so far
2011-05-20 12:16:39,962 - INFO - Processed 108200000 reads so far
2011-05-20 12:16:53,411 - INFO - Processed 108300000 reads so far
2011-05-20 12:16:59,234 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:162990227-183010227
2011-05-20 12:17:03,941 - INFO - Processed 108400000 reads so far
2011-05-20 12:17:16,597 - INFO - Processed 108500000 reads so far
2011-05-20 12:17:28,431 - INFO - Processed 108600000 reads so far
2011-05-20 12:17:41,165 - INFO - Processed 108700000 reads so far
2011-05-20 12:17:52,578 - INFO - Processed 108800000 reads so far
2011-05-20 12:18:07,320 - INFO - Processed 108900000 reads so far
2011-05-20 12:18:18,606 - INFO - Processed 109000000 reads so far
2011-05-20 12:18:32,059 - INFO - Processed 109100000 reads so far
2011-05-20 12:18:43,286 - INFO - Processed 109200000 reads so far
2011-05-20 12:18:53,737 - INFO - Processed 109300000 reads so far
2011-05-20 12:19:04,140 - INFO - Processed 109400000 reads so far
2011-05-20 12:19:14,860 - INFO - Processed 109500000 reads so far
2011-05-20 12:19:25,522 - INFO - Processed 109600000 reads so far
2011-05-20 12:19:34,657 - INFO - Processed 109700000 reads so far
2011-05-20 12:19:38,614 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:2989994-23009994
2011-05-20 12:19:46,444 - INFO - Processed 109800000 reads so far
2011-05-20 12:19:59,794 - INFO - Processed 109900000 reads so far
2011-05-20 12:20:12,245 - INFO - Processed 110000000 reads so far
2011-05-20 12:20:24,773 - INFO - Processed 110100000 reads so far
2011-05-20 12:20:37,095 - INFO - Processed 110200000 reads so far
2011-05-20 12:20:47,518 - INFO - Processed 110300000 reads so far
2011-05-20 12:20:58,771 - INFO - Processed 110400000 reads so far
2011-05-20 12:21:11,942 - INFO - Processed 110500000 reads so far
2011-05-20 12:21:23,900 - INFO - Processed 110600000 reads so far
2011-05-20 12:21:35,148 - INFO - Processed 110700000 reads so far
2011-05-20 12:21:48,191 - INFO - Processed 110800000 reads so far
2011-05-20 12:22:00,456 - INFO - Processed 110900000 reads so far
2011-05-20 12:22:12,907 - INFO - Processed 111000000 reads so far
2011-05-20 12:22:22,186 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:22989998-43009998
2011-05-20 12:22:25,140 - INFO - Processed 111100000 reads so far
2011-05-20 12:22:36,956 - INFO - Processed 111200000 reads so far
2011-05-20 12:22:49,970 - INFO - Processed 111300000 reads so far
2011-05-20 12:23:01,239 - INFO - Processed 111400000 reads so far
2011-05-20 12:23:12,929 - INFO - Processed 111500000 reads so far
2011-05-20 12:23:27,798 - INFO - Processed 111600000 reads so far
2011-05-20 12:23:39,574 - INFO - Processed 111700000 reads so far
2011-05-20 12:23:52,680 - INFO - Processed 111800000 reads so far
2011-05-20 12:24:04,873 - INFO - Processed 111900000 reads so far
2011-05-20 12:24:15,795 - INFO - Processed 112000000 reads so far
2011-05-20 12:24:28,602 - INFO - Processed 112100000 reads so far
2011-05-20 12:24:39,956 - INFO - Processed 112200000 reads so far
2011-05-20 12:24:51,880 - INFO - Processed 112300000 reads so far
2011-05-20 12:25:02,663 - INFO - Processed 112400000 reads so far
2011-05-20 12:25:06,350 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:42990015-63010015
2011-05-20 12:25:14,645 - INFO - Processed 112500000 reads so far
2011-05-20 12:25:26,236 - INFO - Processed 112600000 reads so far
2011-05-20 12:25:38,682 - INFO - Processed 112700000 reads so far
2011-05-20 12:25:51,193 - INFO - Processed 112800000 reads so far
2011-05-20 12:26:03,142 - INFO - Processed 112900000 reads so far
2011-05-20 12:26:14,153 - INFO - Processed 113000000 reads so far
2011-05-20 12:26:24,884 - INFO - Processed 113100000 reads so far
2011-05-20 12:26:36,951 - INFO - Processed 113200000 reads so far
2011-05-20 12:26:50,275 - INFO - Processed 113300000 reads so far
2011-05-20 12:27:02,076 - INFO - Processed 113400000 reads so far
2011-05-20 12:27:14,749 - INFO - Processed 113500000 reads so far
2011-05-20 12:27:26,364 - INFO - Processed 113600000 reads so far
2011-05-20 12:27:37,510 - INFO - Processed 113700000 reads so far
2011-05-20 12:27:41,609 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:62990020-83010020
2011-05-20 12:27:48,963 - INFO - Processed 113800000 reads so far
2011-05-20 12:27:59,891 - INFO - Processed 113900000 reads so far
2011-05-20 12:28:12,174 - INFO - Processed 114000000 reads so far
2011-05-20 12:28:23,149 - INFO - Processed 114100000 reads so far
2011-05-20 12:28:35,022 - INFO - Processed 114200000 reads so far
2011-05-20 12:28:45,627 - INFO - Processed 114300000 reads so far
2011-05-20 12:28:56,837 - INFO - Processed 114400000 reads so far
2011-05-20 12:29:10,529 - INFO - Processed 114500000 reads so far
2011-05-20 12:29:21,688 - INFO - Processed 114600000 reads so far
2011-05-20 12:29:34,020 - INFO - Processed 114700000 reads so far
2011-05-20 12:29:45,776 - INFO - Processed 114800000 reads so far
2011-05-20 12:29:57,679 - INFO - Processed 114900000 reads so far
2011-05-20 12:30:09,240 - INFO - Processed 115000000 reads so far
2011-05-20 12:30:13,444 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:82990026-103010026
2011-05-20 12:30:20,665 - INFO - Processed 115100000 reads so far
2011-05-20 12:30:32,470 - INFO - Processed 115200000 reads so far
2011-05-20 12:30:44,923 - INFO - Processed 115300000 reads so far
2011-05-20 12:30:57,107 - INFO - Processed 115400000 reads so far
2011-05-20 12:31:08,944 - INFO - Processed 115500000 reads so far
2011-05-20 12:31:20,793 - INFO - Processed 115600000 reads so far
2011-05-20 12:31:32,968 - INFO - Processed 115700000 reads so far
2011-05-20 12:31:44,953 - INFO - Processed 115800000 reads so far
2011-05-20 12:32:01,176 - INFO - Processed 115900000 reads so far
2011-05-20 12:32:12,810 - INFO - Processed 116000000 reads so far
2011-05-20 12:32:26,374 - INFO - Processed 116100000 reads so far
2011-05-20 12:32:38,054 - INFO - Processed 116200000 reads so far
2011-05-20 12:32:50,373 - INFO - Processed 116300000 reads so far
2011-05-20 12:33:02,710 - INFO - Processed 116400000 reads so far
2011-05-20 12:33:03,062 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:102990029-123010029
2011-05-20 12:33:14,718 - INFO - Processed 116500000 reads so far
2011-05-20 12:33:26,192 - INFO - Processed 116600000 reads so far
2011-05-20 12:33:38,087 - INFO - Processed 116700000 reads so far
2011-05-20 12:33:49,865 - INFO - Processed 116800000 reads so far
2011-05-20 12:34:02,077 - INFO - Processed 116900000 reads so far
2011-05-20 12:34:14,187 - INFO - Processed 117000000 reads so far
2011-05-20 12:34:28,085 - INFO - Processed 117100000 reads so far
2011-05-20 12:34:44,508 - INFO - Processed 117200000 reads so far
2011-05-20 12:34:57,046 - INFO - Processed 117300000 reads so far
2011-05-20 12:35:08,864 - INFO - Processed 117400000 reads so far
2011-05-20 12:35:18,866 - INFO - Processed 117500000 reads so far
2011-05-20 12:35:28,767 - INFO - Processed 117600000 reads so far
2011-05-20 12:35:41,179 - INFO - Processed 117700000 reads so far
2011-05-20 12:35:45,441 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:122990037-143010037
2011-05-20 12:35:52,163 - INFO - Processed 117800000 reads so far
2011-05-20 12:36:03,111 - INFO - Processed 117900000 reads so far
2011-05-20 12:36:17,218 - INFO - Processed 118000000 reads so far
2011-05-20 12:36:28,948 - INFO - Processed 118100000 reads so far
2011-05-20 12:36:40,921 - INFO - Processed 118200000 reads so far
2011-05-20 12:36:54,436 - INFO - Processed 118300000 reads so far
2011-05-20 12:37:06,318 - INFO - Processed 118400000 reads so far
2011-05-20 12:37:17,106 - INFO - Processed 118500000 reads so far
2011-05-20 12:37:30,699 - INFO - Processed 118600000 reads so far
2011-05-20 12:37:42,060 - INFO - Processed 118700000 reads so far
2011-05-20 12:37:55,151 - INFO - Processed 118800000 reads so far
2011-05-20 12:38:07,601 - INFO - Processed 118900000 reads so far
2011-05-20 12:38:19,397 - INFO - Processed 119000000 reads so far
2011-05-20 12:38:29,928 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:142990047-163010047
2011-05-20 12:38:31,656 - INFO - Processed 119100000 reads so far
2011-05-20 12:38:45,257 - INFO - Processed 119200000 reads so far
2011-05-20 12:38:58,343 - INFO - Processed 119300000 reads so far
2011-05-20 12:39:10,435 - INFO - Processed 119400000 reads so far
2011-05-20 12:39:21,722 - INFO - Processed 119500000 reads so far
2011-05-20 12:39:33,843 - INFO - Processed 119600000 reads so far
2011-05-20 12:39:45,830 - INFO - Processed 119700000 reads so far
2011-05-20 12:39:58,036 - INFO - Processed 119800000 reads so far
2011-05-20 12:40:11,279 - INFO - Processed 119900000 reads so far
2011-05-20 12:40:24,653 - INFO - Processed 120000000 reads so far
2011-05-20 12:40:37,601 - INFO - Processed 120100000 reads so far
2011-05-20 12:40:49,131 - INFO - Processed 120200000 reads so far
2011-05-20 12:40:52,358 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3_random:0-20010075
2011-05-20 12:40:52,507 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:2990000-23010000
2011-05-20 12:41:01,857 - INFO - Processed 120300000 reads so far
2011-05-20 12:41:13,632 - INFO - Processed 120400000 reads so far
2011-05-20 12:41:26,446 - INFO - Processed 120500000 reads so far
2011-05-20 12:41:39,355 - INFO - Processed 120600000 reads so far
2011-05-20 12:41:51,262 - INFO - Processed 120700000 reads so far
2011-05-20 12:42:03,070 - INFO - Processed 120800000 reads so far
2011-05-20 12:42:14,736 - INFO - Processed 120900000 reads so far
2011-05-20 12:42:27,653 - INFO - Processed 121000000 reads so far
2011-05-20 12:42:38,819 - INFO - Processed 121100000 reads so far
2011-05-20 12:42:49,695 - INFO - Processed 121200000 reads so far
2011-05-20 12:43:01,136 - INFO - Processed 121300000 reads so far
2011-05-20 12:43:12,074 - INFO - Processed 121400000 reads so far
2011-05-20 12:43:24,589 - INFO - Processed 121500000 reads so far
2011-05-20 12:43:35,240 - INFO - Processed 121600000 reads so far
2011-05-20 12:43:35,389 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:22990010-43010010
2011-05-20 12:43:46,585 - INFO - Processed 121700000 reads so far
2011-05-20 12:43:58,876 - INFO - Processed 121800000 reads so far
2011-05-20 12:44:11,158 - INFO - Processed 121900000 reads so far
2011-05-20 12:44:22,518 - INFO - Processed 122000000 reads so far
2011-05-20 12:44:33,805 - INFO - Processed 122100000 reads so far
2011-05-20 12:44:44,678 - INFO - Processed 122200000 reads so far
2011-05-20 12:44:56,241 - INFO - Processed 122300000 reads so far
2011-05-20 12:45:07,472 - INFO - Processed 122400000 reads so far
2011-05-20 12:45:20,381 - INFO - Processed 122500000 reads so far
2011-05-20 12:45:32,272 - INFO - Processed 122600000 reads so far
2011-05-20 12:45:44,154 - INFO - Processed 122700000 reads so far
2011-05-20 12:45:56,079 - INFO - Processed 122800000 reads so far
2011-05-20 12:46:03,486 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:42990013-63010013
2011-05-20 12:46:04,023 - INFO - Processed 122900000 reads so far
2011-05-20 12:46:14,442 - INFO - Processed 123000000 reads so far
2011-05-20 12:46:26,054 - INFO - Processed 123100000 reads so far
2011-05-20 12:46:37,531 - INFO - Processed 123200000 reads so far
2011-05-20 12:46:47,991 - INFO - Processed 123300000 reads so far
2011-05-20 12:46:56,622 - INFO - Processed 123400000 reads so far
2011-05-20 12:47:08,745 - INFO - Processed 123500000 reads so far
2011-05-20 12:47:20,160 - INFO - Processed 123600000 reads so far
2011-05-20 12:47:32,180 - INFO - Processed 123700000 reads so far
2011-05-20 12:47:44,658 - INFO - Processed 123800000 reads so far
2011-05-20 12:47:55,969 - INFO - Processed 123900000 reads so far
2011-05-20 12:48:06,975 - INFO - Processed 124000000 reads so far
2011-05-20 12:48:18,241 - INFO - Processed 124100000 reads so far
2011-05-20 12:48:30,642 - INFO - Processed 124200000 reads so far
2011-05-20 12:48:33,334 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:62990019-83010019
2011-05-20 12:48:41,819 - INFO - Processed 124300000 reads so far
2011-05-20 12:48:52,925 - INFO - Processed 124400000 reads so far
2011-05-20 12:49:03,633 - INFO - Processed 124500000 reads so far
2011-05-20 12:49:13,898 - INFO - Processed 124600000 reads so far
2011-05-20 12:49:23,788 - INFO - Processed 124700000 reads so far
2011-05-20 12:49:35,632 - INFO - Processed 124800000 reads so far
2011-05-20 12:49:48,740 - INFO - Processed 124900000 reads so far
2011-05-20 12:49:58,616 - INFO - Processed 125000000 reads so far
2011-05-20 12:50:10,141 - INFO - Processed 125100000 reads so far
2011-05-20 12:50:19,997 - INFO - Processed 125200000 reads so far
2011-05-20 12:50:30,466 - INFO - Processed 125300000 reads so far
2011-05-20 12:50:40,573 - INFO - Processed 125400000 reads so far
2011-05-20 12:50:51,022 - INFO - Processed 125500000 reads so far
2011-05-20 12:51:00,579 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:82990068-103010068
2011-05-20 12:51:04,965 - INFO - Processed 125600000 reads so far
2011-05-20 12:51:15,723 - INFO - Processed 125700000 reads so far
2011-05-20 12:51:26,170 - INFO - Processed 125800000 reads so far
2011-05-20 12:51:37,027 - INFO - Processed 125900000 reads so far
2011-05-20 12:51:47,981 - INFO - Processed 126000000 reads so far
2011-05-20 12:51:58,296 - INFO - Processed 126100000 reads so far
2011-05-20 12:52:08,407 - INFO - Processed 126200000 reads so far
2011-05-20 12:52:18,335 - INFO - Processed 126300000 reads so far
2011-05-20 12:52:28,681 - INFO - Processed 126400000 reads so far
2011-05-20 12:52:40,102 - INFO - Processed 126500000 reads so far
2011-05-20 12:52:50,496 - INFO - Processed 126600000 reads so far
2011-05-20 12:53:01,893 - INFO - Processed 126700000 reads so far
2011-05-20 12:53:12,611 - INFO - Processed 126800000 reads so far
2011-05-20 12:53:24,008 - INFO - Processed 126900000 reads so far
2011-05-20 12:53:27,433 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:102990069-123010069
2011-05-20 12:53:34,556 - INFO - Processed 127000000 reads so far
2011-05-20 12:53:45,185 - INFO - Processed 127100000 reads so far
2011-05-20 12:53:55,073 - INFO - Processed 127200000 reads so far
2011-05-20 12:54:05,817 - INFO - Processed 127300000 reads so far
2011-05-20 12:54:16,375 - INFO - Processed 127400000 reads so far
2011-05-20 12:54:27,281 - INFO - Processed 127500000 reads so far
2011-05-20 12:54:38,514 - INFO - Processed 127600000 reads so far
2011-05-20 12:54:48,339 - INFO - Processed 127700000 reads so far
2011-05-20 12:54:57,679 - INFO - Processed 127800000 reads so far
2011-05-20 12:55:07,320 - INFO - Processed 127900000 reads so far
2011-05-20 12:55:18,916 - INFO - Processed 128000000 reads so far
2011-05-20 12:55:29,084 - INFO - Processed 128100000 reads so far
2011-05-20 12:55:38,542 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:122990072-143010072
2011-05-20 12:55:39,376 - INFO - Processed 128200000 reads so far
2011-05-20 12:55:50,886 - INFO - Processed 128300000 reads so far
2011-05-20 12:56:01,064 - INFO - Processed 128400000 reads so far
2011-05-20 12:56:09,853 - INFO - Processed 128500000 reads so far
2011-05-20 12:56:18,567 - INFO - Processed 128600000 reads so far
2011-05-20 12:56:28,616 - INFO - Processed 128700000 reads so far
2011-05-20 12:56:38,973 - INFO - Processed 128800000 reads so far
2011-05-20 12:56:49,797 - INFO - Processed 128900000 reads so far
2011-05-20 12:57:00,560 - INFO - Processed 129000000 reads so far
2011-05-20 12:57:11,707 - INFO - Processed 129100000 reads so far
2011-05-20 12:57:22,580 - INFO - Processed 129200000 reads so far
2011-05-20 12:57:32,817 - INFO - Processed 129300000 reads so far
2011-05-20 12:57:44,056 - INFO - Processed 129400000 reads so far
2011-05-20 12:57:53,641 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:142990080-163010080
2011-05-20 12:57:54,912 - INFO - Processed 129500000 reads so far
2011-05-20 12:58:06,837 - INFO - Processed 129600000 reads so far
2011-05-20 12:58:27,083 - INFO - Processed 129700000 reads so far
2011-05-20 12:58:38,088 - INFO - Processed 129800000 reads so far
2011-05-20 12:58:49,053 - INFO - Processed 129900000 reads so far
2011-05-20 12:58:57,747 - INFO - Processed 130000000 reads so far
2011-05-20 12:59:06,426 - INFO - Processed 130100000 reads so far
2011-05-20 12:59:15,103 - INFO - Processed 130200000 reads so far
2011-05-20 12:59:25,014 - INFO - Processed 130300000 reads so far
2011-05-20 12:59:36,037 - INFO - Processed 130400000 reads so far
2011-05-20 12:59:46,486 - INFO - Processed 130500000 reads so far
2011-05-20 12:59:56,744 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4_random:0-20010012
2011-05-20 12:59:57,453 - INFO - Processed 130600000 reads so far
2011-05-20 12:59:58,615 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:2990044-23010044
2011-05-20 13:00:09,306 - INFO - Processed 130700000 reads so far
2011-05-20 13:00:19,422 - INFO - Processed 130800000 reads so far
2011-05-20 13:00:29,337 - INFO - Processed 130900000 reads so far
2011-05-20 13:00:41,731 - INFO - Processed 131000000 reads so far
2011-05-20 13:00:52,081 - INFO - Processed 131100000 reads so far
2011-05-20 13:01:02,178 - INFO - Processed 131200000 reads so far
2011-05-20 13:01:13,080 - INFO - Processed 131300000 reads so far
2011-05-20 13:01:24,597 - INFO - Processed 131400000 reads so far
2011-05-20 13:01:35,327 - INFO - Processed 131500000 reads so far
2011-05-20 13:01:45,681 - INFO - Processed 131600000 reads so far
2011-05-20 13:01:57,590 - INFO - Processed 131700000 reads so far
2011-05-20 13:02:08,298 - INFO - Processed 131800000 reads so far
2011-05-20 13:02:19,060 - INFO - Processed 131900000 reads so far
2011-05-20 13:02:26,353 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:22990512-43010512
2011-05-20 13:02:29,528 - INFO - Processed 132000000 reads so far
2011-05-20 13:02:40,427 - INFO - Processed 132100000 reads so far
2011-05-20 13:02:51,386 - INFO - Processed 132200000 reads so far
2011-05-20 13:03:01,840 - INFO - Processed 132300000 reads so far
2011-05-20 13:03:11,480 - INFO - Processed 132400000 reads so far
2011-05-20 13:03:22,671 - INFO - Processed 132500000 reads so far
2011-05-20 13:03:33,387 - INFO - Processed 132600000 reads so far
2011-05-20 13:03:44,280 - INFO - Processed 132700000 reads so far
2011-05-20 13:03:55,062 - INFO - Processed 132800000 reads so far
2011-05-20 13:04:05,369 - INFO - Processed 132900000 reads so far
2011-05-20 13:04:16,537 - INFO - Processed 133000000 reads so far
2011-05-20 13:04:27,277 - INFO - Processed 133100000 reads so far
2011-05-20 13:04:37,617 - INFO - Processed 133200000 reads so far
2011-05-20 13:04:50,271 - INFO - Processed 133300000 reads so far
2011-05-20 13:04:51,776 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:42990520-63010520
2011-05-20 13:05:02,116 - INFO - Processed 133400000 reads so far
2011-05-20 13:05:13,999 - INFO - Processed 133500000 reads so far
2011-05-20 13:05:25,223 - INFO - Processed 133600000 reads so far
2011-05-20 13:05:35,869 - INFO - Processed 133700000 reads so far
2011-05-20 13:05:46,276 - INFO - Processed 133800000 reads so far
2011-05-20 13:05:56,413 - INFO - Processed 133900000 reads so far
2011-05-20 13:06:07,079 - INFO - Processed 134000000 reads so far
2011-05-20 13:06:17,646 - INFO - Processed 134100000 reads so far
2011-05-20 13:06:26,537 - INFO - Processed 134200000 reads so far
2011-05-20 13:06:34,960 - INFO - Processed 134300000 reads so far
2011-05-20 13:06:45,831 - INFO - Processed 134400000 reads so far
2011-05-20 13:06:57,266 - INFO - Processed 134500000 reads so far
2011-05-20 13:07:06,898 - INFO - Processed 134600000 reads so far
2011-05-20 13:07:08,356 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:62990537-83010537
2011-05-20 13:07:15,472 - INFO - Processed 134700000 reads so far
2011-05-20 13:07:23,649 - INFO - Processed 134800000 reads so far
2011-05-20 13:07:33,348 - INFO - Processed 134900000 reads so far
2011-05-20 13:07:42,274 - INFO - Processed 135000000 reads so far
2011-05-20 13:07:53,833 - INFO - Processed 135100000 reads so far
2011-05-20 13:08:02,393 - INFO - Processed 135200000 reads so far
2011-05-20 13:08:13,805 - INFO - Processed 135300000 reads so far
2011-05-20 13:08:24,630 - INFO - Processed 135400000 reads so far
2011-05-20 13:08:35,818 - INFO - Processed 135500000 reads so far
2011-05-20 13:08:46,502 - INFO - Processed 135600000 reads so far
2011-05-20 13:08:55,085 - INFO - Processed 135700000 reads so far
2011-05-20 13:09:05,660 - INFO - Processed 135800000 reads so far
2011-05-20 13:09:15,612 - INFO - Processed 135900000 reads so far
2011-05-20 13:09:18,783 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:82990544-103010544
2011-05-20 13:09:24,733 - INFO - Processed 136000000 reads so far
2011-05-20 13:09:46,777 - INFO - Processed 136100000 reads so far
2011-05-20 13:10:02,483 - INFO - Processed 136200000 reads so far
2011-05-20 13:10:15,090 - INFO - Processed 136300000 reads so far
2011-05-20 13:10:29,031 - INFO - Processed 136400000 reads so far
2011-05-20 13:10:45,687 - INFO - Processed 136500000 reads so far
2011-05-20 13:11:11,338 - INFO - Processed 136600000 reads so far
2011-05-20 13:11:22,488 - INFO - Processed 136700000 reads so far
2011-05-20 13:11:31,383 - INFO - Processed 136800000 reads so far
2011-05-20 13:11:49,632 - INFO - Processed 136900000 reads so far
2011-05-20 13:12:03,160 - INFO - Processed 137000000 reads so far
2011-05-20 13:12:12,308 - INFO - Processed 137100000 reads so far
2011-05-20 13:12:22,188 - INFO - Processed 137200000 reads so far
2011-05-20 13:12:31,150 - INFO - Processed 137300000 reads so far
2011-05-20 13:12:32,077 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:102990559-123010559
2011-05-20 13:12:52,406 - INFO - Processed 137400000 reads so far
2011-05-20 13:13:01,580 - INFO - Processed 137500000 reads so far
2011-05-20 13:13:10,722 - INFO - Processed 137600000 reads so far
2011-05-20 13:13:33,175 - INFO - Processed 137700000 reads so far
2011-05-20 13:13:44,398 - INFO - Processed 137800000 reads so far
2011-05-20 13:13:59,967 - INFO - Processed 137900000 reads so far
2011-05-20 13:14:16,066 - INFO - Processed 138000000 reads so far
2011-05-20 13:14:27,906 - INFO - Processed 138100000 reads so far
2011-05-20 13:14:50,977 - INFO - Processed 138200000 reads so far
2011-05-20 13:15:02,148 - INFO - Processed 138300000 reads so far
2011-05-20 13:15:21,228 - INFO - Processed 138400000 reads so far
2011-05-20 13:15:34,022 - INFO - Processed 138500000 reads so far
2011-05-20 13:15:46,822 - INFO - Processed 138600000 reads so far
2011-05-20 13:15:52,536 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:122990561-143010561
2011-05-20 13:15:59,495 - INFO - Processed 138700000 reads so far
2011-05-20 13:16:11,067 - INFO - Processed 138800000 reads so far
2011-05-20 13:16:21,466 - INFO - Processed 138900000 reads so far
2011-05-20 13:16:33,944 - INFO - Processed 139000000 reads so far
2011-05-20 13:16:43,615 - INFO - Processed 139100000 reads so far
2011-05-20 13:16:53,206 - INFO - Processed 139200000 reads so far
2011-05-20 13:17:04,110 - INFO - Processed 139300000 reads so far
2011-05-20 13:17:13,298 - INFO - Processed 139400000 reads so far
2011-05-20 13:17:24,565 - INFO - Processed 139500000 reads so far
2011-05-20 13:17:35,083 - INFO - Processed 139600000 reads so far
2011-05-20 13:17:43,435 - INFO - Processed 139700000 reads so far
2011-05-20 13:17:52,215 - INFO - Processed 139800000 reads so far
2011-05-20 13:18:00,244 - INFO - Processed 139900000 reads so far
2011-05-20 13:18:10,742 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:142990563-163010563
2011-05-20 13:18:12,257 - INFO - Processed 140000000 reads so far
2011-05-20 13:18:21,905 - INFO - Processed 140100000 reads so far
2011-05-20 13:18:29,869 - INFO - Processed 140200000 reads so far
2011-05-20 13:18:37,850 - INFO - Processed 140300000 reads so far
2011-05-20 13:18:47,421 - INFO - Processed 140400000 reads so far
2011-05-20 13:18:54,836 - INFO - Processed 140500000 reads so far
2011-05-20 13:19:02,206 - INFO - Processed 140600000 reads so far
2011-05-20 13:19:04,302 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5_random:0-20010028
2011-05-20 13:19:05,171 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:2990019-23010019
2011-05-20 13:19:12,178 - INFO - Processed 140700000 reads so far
2011-05-20 13:19:21,278 - INFO - Processed 140800000 reads so far
2011-05-20 13:19:29,127 - INFO - Processed 140900000 reads so far
2011-05-20 13:19:36,753 - INFO - Processed 141000000 reads so far
2011-05-20 13:19:45,559 - INFO - Processed 141100000 reads so far
2011-05-20 13:19:55,675 - INFO - Processed 141200000 reads so far
2011-05-20 13:20:06,319 - INFO - Processed 141300000 reads so far
2011-05-20 13:20:14,200 - INFO - Processed 141400000 reads so far
2011-05-20 13:20:24,277 - INFO - Processed 141500000 reads so far
2011-05-20 13:20:31,784 - INFO - Processed 141600000 reads so far
2011-05-20 13:20:39,260 - INFO - Processed 141700000 reads so far
2011-05-20 13:20:48,051 - INFO - Processed 141800000 reads so far
2011-05-20 13:20:56,176 - INFO - Processed 141900000 reads so far
2011-05-20 13:21:02,051 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:22990055-43010055
2011-05-20 13:21:05,897 - INFO - Processed 142000000 reads so far
2011-05-20 13:21:13,309 - INFO - Processed 142100000 reads so far
2011-05-20 13:21:22,252 - INFO - Processed 142200000 reads so far
2011-05-20 13:21:31,518 - INFO - Processed 142300000 reads so far
2011-05-20 13:21:39,542 - INFO - Processed 142400000 reads so far
2011-05-20 13:21:47,202 - INFO - Processed 142500000 reads so far
2011-05-20 13:21:55,272 - INFO - Processed 142600000 reads so far
2011-05-20 13:22:02,576 - INFO - Processed 142700000 reads so far
2011-05-20 13:22:09,960 - INFO - Processed 142800000 reads so far
2011-05-20 13:22:17,204 - INFO - Processed 142900000 reads so far
2011-05-20 13:22:27,108 - INFO - Processed 143000000 reads so far
2011-05-20 13:22:38,691 - INFO - Processed 143100000 reads so far
2011-05-20 13:22:53,043 - INFO - Processed 143200000 reads so far
2011-05-20 13:23:04,929 - INFO - Processed 143300000 reads so far
2011-05-20 13:23:06,696 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:42990060-63010060
2011-05-20 13:23:12,232 - INFO - Processed 143400000 reads so far
2011-05-20 13:23:20,195 - INFO - Processed 143500000 reads so far
2011-05-20 13:23:31,160 - INFO - Processed 143600000 reads so far
2011-05-20 13:23:43,186 - INFO - Processed 143700000 reads so far
2011-05-20 13:23:54,132 - INFO - Processed 143800000 reads so far
2011-05-20 13:24:06,088 - INFO - Processed 143900000 reads so far
2011-05-20 13:24:17,751 - INFO - Processed 144000000 reads so far
2011-05-20 13:24:29,277 - INFO - Processed 144100000 reads so far
2011-05-20 13:24:40,166 - INFO - Processed 144200000 reads so far
2011-05-20 13:24:51,389 - INFO - Processed 144300000 reads so far
2011-05-20 13:25:01,284 - INFO - Processed 144400000 reads so far
2011-05-20 13:25:10,608 - INFO - Processed 144500000 reads so far
2011-05-20 13:25:22,676 - INFO - Processed 144600000 reads so far
2011-05-20 13:25:34,485 - INFO - Processed 144700000 reads so far
2011-05-20 13:25:38,166 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:62990077-83010077
2011-05-20 13:25:44,418 - INFO - Processed 144800000 reads so far
2011-05-20 13:25:55,617 - INFO - Processed 144900000 reads so far
2011-05-20 13:26:06,132 - INFO - Processed 145000000 reads so far
2011-05-20 13:26:17,195 - INFO - Processed 145100000 reads so far
2011-05-20 13:26:28,420 - INFO - Processed 145200000 reads so far
2011-05-20 13:26:38,072 - INFO - Processed 145300000 reads so far
2011-05-20 13:26:50,292 - INFO - Processed 145400000 reads so far
2011-05-20 13:27:01,507 - INFO - Processed 145500000 reads so far
2011-05-20 13:27:14,102 - INFO - Processed 145600000 reads so far
2011-05-20 13:27:24,497 - INFO - Processed 145700000 reads so far
2011-05-20 13:27:35,361 - INFO - Processed 145800000 reads so far
2011-05-20 13:27:47,935 - INFO - Processed 145900000 reads so far
2011-05-20 13:27:59,233 - INFO - Processed 146000000 reads so far
2011-05-20 13:28:03,100 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:82990081-103010081
2011-05-20 13:28:11,334 - INFO - Processed 146100000 reads so far
2011-05-20 13:28:21,261 - INFO - Processed 146200000 reads so far
2011-05-20 13:28:32,253 - INFO - Processed 146300000 reads so far
2011-05-20 13:28:43,568 - INFO - Processed 146400000 reads so far
2011-05-20 13:28:54,927 - INFO - Processed 146500000 reads so far
2011-05-20 13:29:05,634 - INFO - Processed 146600000 reads so far
2011-05-20 13:29:15,875 - INFO - Processed 146700000 reads so far
2011-05-20 13:29:27,932 - INFO - Processed 146800000 reads so far
2011-05-20 13:29:39,583 - INFO - Processed 146900000 reads so far
2011-05-20 13:29:50,259 - INFO - Processed 147000000 reads so far
2011-05-20 13:30:01,003 - INFO - Processed 147100000 reads so far
2011-05-20 13:30:11,851 - INFO - Processed 147200000 reads so far
2011-05-20 13:30:22,488 - INFO - Processed 147300000 reads so far
2011-05-20 13:30:33,742 - INFO - Processed 147400000 reads so far
2011-05-20 13:30:34,911 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:102990088-123010088
2011-05-20 13:30:44,671 - INFO - Processed 147500000 reads so far
2011-05-20 13:30:53,857 - INFO - Processed 147600000 reads so far
2011-05-20 13:31:03,492 - INFO - Processed 147700000 reads so far
2011-05-20 13:31:13,693 - INFO - Processed 147800000 reads so far
2011-05-20 13:31:23,593 - INFO - Processed 147900000 reads so far
2011-05-20 13:31:33,975 - INFO - Processed 148000000 reads so far
2011-05-20 13:31:43,614 - INFO - Processed 148100000 reads so far
2011-05-20 13:31:50,927 - INFO - Processed 148200000 reads so far
2011-05-20 13:31:59,260 - INFO - Processed 148300000 reads so far
2011-05-20 13:32:08,488 - INFO - Processed 148400000 reads so far
2011-05-20 13:32:17,038 - INFO - Processed 148500000 reads so far
2011-05-20 13:32:26,137 - INFO - Processed 148600000 reads so far
2011-05-20 13:32:37,610 - INFO - Processed 148700000 reads so far
2011-05-20 13:32:48,162 - INFO - Processed 148800000 reads so far
2011-05-20 13:32:58,563 - INFO - Processed 148900000 reads so far
2011-05-20 13:33:07,798 - INFO - Processed 149000000 reads so far
2011-05-20 13:33:17,816 - INFO - Processed 149100000 reads so far
2011-05-20 13:33:26,936 - INFO - Processed 149200000 reads so far
2011-05-20 13:33:37,053 - INFO - Processed 149300000 reads so far
2011-05-20 13:33:46,870 - INFO - Processed 149400000 reads so far
2011-05-20 13:33:56,501 - INFO - Processed 149500000 reads so far
2011-05-20 13:34:07,473 - INFO - Processed 149600000 reads so far
2011-05-20 13:34:16,842 - INFO - Processed 149700000 reads so far
2011-05-20 13:34:27,353 - INFO - Processed 149800000 reads so far
2011-05-20 13:34:37,073 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:122990089-143010089
2011-05-20 13:34:39,421 - INFO - Processed 149900000 reads so far
2011-05-20 13:34:50,523 - INFO - Processed 150000000 reads so far
2011-05-20 13:35:01,443 - INFO - Processed 150100000 reads so far
2011-05-20 13:35:14,050 - INFO - Processed 150200000 reads so far
2011-05-20 13:35:24,650 - INFO - Processed 150300000 reads so far
2011-05-20 13:35:33,906 - INFO - Processed 150400000 reads so far
2011-05-20 13:35:45,458 - INFO - Processed 150500000 reads so far
2011-05-20 13:35:54,571 - INFO - Processed 150600000 reads so far
2011-05-20 13:36:04,161 - INFO - Processed 150700000 reads so far
2011-05-20 13:36:14,600 - INFO - Processed 150800000 reads so far
2011-05-20 13:36:24,329 - INFO - Processed 150900000 reads so far
2011-05-20 13:36:32,997 - INFO - Processed 151000000 reads so far
2011-05-20 13:36:43,973 - INFO - Processed 151100000 reads so far
2011-05-20 13:36:57,110 - INFO - Processed 151200000 reads so far
2011-05-20 13:37:02,980 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:142990092-163010092
2011-05-20 13:37:05,421 - INFO - Processed 151300000 reads so far
2011-05-20 13:37:13,518 - INFO - Processed 151400000 reads so far
2011-05-20 13:37:21,390 - INFO - Processed 151500000 reads so far
2011-05-20 13:37:31,421 - INFO - Processed 151600000 reads so far
2011-05-20 13:37:40,519 - INFO - Processed 151700000 reads so far
2011-05-20 13:37:42,005 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:2990036-23010036
2011-05-20 13:37:49,073 - INFO - Processed 151800000 reads so far
2011-05-20 13:37:57,754 - INFO - Processed 151900000 reads so far
2011-05-20 13:38:09,303 - INFO - Processed 152000000 reads so far
2011-05-20 13:38:18,344 - INFO - Processed 152100000 reads so far
2011-05-20 13:38:28,450 - INFO - Processed 152200000 reads so far
2011-05-20 13:38:38,310 - INFO - Processed 152300000 reads so far
2011-05-20 13:38:49,560 - INFO - Processed 152400000 reads so far
2011-05-20 13:39:00,256 - INFO - Processed 152500000 reads so far
2011-05-20 13:39:07,581 - INFO - Processed 152600000 reads so far
2011-05-20 13:39:17,118 - INFO - Processed 152700000 reads so far
2011-05-20 13:39:28,493 - INFO - Processed 152800000 reads so far
2011-05-20 13:39:40,272 - INFO - Processed 152900000 reads so far
2011-05-20 13:39:40,892 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:22990043-43010043
2011-05-20 13:39:50,774 - INFO - Processed 153000000 reads so far
2011-05-20 13:40:01,207 - INFO - Processed 153100000 reads so far
2011-05-20 13:40:12,059 - INFO - Processed 153200000 reads so far
2011-05-20 13:40:23,933 - INFO - Processed 153300000 reads so far
2011-05-20 13:40:35,596 - INFO - Processed 153400000 reads so far
2011-05-20 13:40:46,774 - INFO - Processed 153500000 reads so far
2011-05-20 13:40:57,486 - INFO - Processed 153600000 reads so far
2011-05-20 13:41:09,774 - INFO - Processed 153700000 reads so far
2011-05-20 13:41:20,352 - INFO - Processed 153800000 reads so far
2011-05-20 13:41:29,546 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:46351718-66371718
2011-05-20 13:41:31,176 - INFO - Processed 153900000 reads so far
2011-05-20 13:41:40,931 - INFO - Processed 154000000 reads so far
2011-05-20 13:41:51,937 - INFO - Processed 154100000 reads so far
2011-05-20 13:42:01,947 - INFO - Processed 154200000 reads so far
2011-05-20 13:42:13,252 - INFO - Processed 154300000 reads so far
2011-05-20 13:42:22,511 - INFO - Processed 154400000 reads so far
2011-05-20 13:42:30,057 - INFO - Processed 154500000 reads so far
2011-05-20 13:42:42,354 - INFO - Processed 154600000 reads so far
2011-05-20 13:42:54,278 - INFO - Processed 154700000 reads so far
2011-05-20 13:43:04,769 - INFO - Processed 154800000 reads so far
2011-05-20 13:43:15,332 - INFO - Processed 154900000 reads so far
2011-05-20 13:43:26,219 - INFO - Processed 155000000 reads so far
2011-05-20 13:43:36,488 - INFO - Processed 155100000 reads so far
2011-05-20 13:43:47,328 - INFO - Processed 155200000 reads so far
2011-05-20 13:43:51,445 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:66351727-86371727
2011-05-20 13:43:58,856 - INFO - Processed 155300000 reads so far
2011-05-20 13:44:08,546 - INFO - Processed 155400000 reads so far
2011-05-20 13:44:19,592 - INFO - Processed 155500000 reads so far
2011-05-20 13:44:30,558 - INFO - Processed 155600000 reads so far
2011-05-20 13:44:39,894 - INFO - Processed 155700000 reads so far
2011-05-20 13:44:47,932 - INFO - Processed 155800000 reads so far
2011-05-20 13:44:58,834 - INFO - Processed 155900000 reads so far
2011-05-20 13:45:10,294 - INFO - Processed 156000000 reads so far
2011-05-20 13:45:20,955 - INFO - Processed 156100000 reads so far
2011-05-20 13:45:32,018 - INFO - Processed 156200000 reads so far
2011-05-20 13:45:44,385 - INFO - Processed 156300000 reads so far
2011-05-20 13:45:55,255 - INFO - Processed 156400000 reads so far
2011-05-20 13:46:06,075 - INFO - Processed 156500000 reads so far
2011-05-20 13:46:17,754 - INFO - Processed 156600000 reads so far
2011-05-20 13:46:19,909 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:86351756-106371756
2011-05-20 13:46:29,847 - INFO - Processed 156700000 reads so far
2011-05-20 13:46:41,079 - INFO - Processed 156800000 reads so far
2011-05-20 13:46:52,399 - INFO - Processed 156900000 reads so far
2011-05-20 13:47:03,469 - INFO - Processed 157000000 reads so far
2011-05-20 13:47:14,819 - INFO - Processed 157100000 reads so far
2011-05-20 13:47:26,177 - INFO - Processed 157200000 reads so far
2011-05-20 13:47:36,177 - INFO - Processed 157300000 reads so far
2011-05-20 13:47:45,605 - INFO - Processed 157400000 reads so far
2011-05-20 13:47:56,594 - INFO - Processed 157500000 reads so far
2011-05-20 13:48:09,265 - INFO - Processed 157600000 reads so far
2011-05-20 13:48:20,231 - INFO - Processed 157700000 reads so far
2011-05-20 13:48:29,386 - INFO - Processed 157800000 reads so far
2011-05-20 13:48:39,563 - INFO - Processed 157900000 reads so far
2011-05-20 13:48:43,890 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:106351786-126371786
2011-05-20 13:48:49,104 - INFO - Processed 158000000 reads so far
2011-05-20 13:48:59,843 - INFO - Processed 158100000 reads so far
2011-05-20 13:49:11,829 - INFO - Processed 158200000 reads so far
2011-05-20 13:49:22,553 - INFO - Processed 158300000 reads so far
2011-05-20 13:49:33,538 - INFO - Processed 158400000 reads so far
2011-05-20 13:49:44,248 - INFO - Processed 158500000 reads so far
2011-05-20 13:49:54,116 - INFO - Processed 158600000 reads so far
2011-05-20 13:50:03,580 - INFO - Processed 158700000 reads so far
2011-05-20 13:50:12,851 - INFO - Processed 158800000 reads so far
2011-05-20 13:50:22,011 - INFO - Processed 158900000 reads so far
2011-05-20 13:50:30,759 - INFO - Processed 159000000 reads so far
2011-05-20 13:50:42,185 - INFO - Processed 159100000 reads so far
2011-05-20 13:50:52,610 - INFO - Processed 159200000 reads so far
2011-05-20 13:51:01,543 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:126351806-146371806
2011-05-20 13:51:03,250 - INFO - Processed 159300000 reads so far
2011-05-20 13:51:14,513 - INFO - Processed 159400000 reads so far
2011-05-20 13:51:25,477 - INFO - Processed 159500000 reads so far
2011-05-20 13:51:36,517 - INFO - Processed 159600000 reads so far
2011-05-20 13:51:47,809 - INFO - Processed 159700000 reads so far
2011-05-20 13:51:59,155 - INFO - Processed 159800000 reads so far
2011-05-20 13:52:10,612 - INFO - Processed 159900000 reads so far
2011-05-20 13:52:17,914 - INFO - Processed 160000000 reads so far
2011-05-20 13:52:28,493 - INFO - Processed 160100000 reads so far
2011-05-20 13:52:36,537 - INFO - Processed 160200000 reads so far
2011-05-20 13:52:47,389 - INFO - Processed 160300000 reads so far
2011-05-20 13:52:55,406 - INFO - Processed 160400000 reads so far
2011-05-20 13:53:09,433 - INFO - Processed 160500000 reads so far
2011-05-20 13:53:20,000 - INFO - Processed 160600000 reads so far
2011-05-20 13:53:29,408 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:146351827-166371827
2011-05-20 13:53:32,243 - INFO - Processed 160700000 reads so far
2011-05-20 13:53:43,483 - INFO - Processed 160800000 reads so far
2011-05-20 13:53:55,992 - INFO - Processed 160900000 reads so far
2011-05-20 13:54:06,920 - INFO - Processed 161000000 reads so far
2011-05-20 13:54:15,488 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7_random:0-20010061
2011-05-20 13:54:15,866 - INFO - Processed 161100000 reads so far
2011-05-20 13:54:16,916 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:2990037-23010037
2011-05-20 13:54:27,107 - INFO - Processed 161200000 reads so far
2011-05-20 13:54:36,796 - INFO - Processed 161300000 reads so far
2011-05-20 13:54:47,474 - INFO - Processed 161400000 reads so far
2011-05-20 13:54:58,217 - INFO - Processed 161500000 reads so far
2011-05-20 13:55:09,387 - INFO - Processed 161600000 reads so far
2011-05-20 13:55:20,449 - INFO - Processed 161700000 reads so far
2011-05-20 13:55:31,446 - INFO - Processed 161800000 reads so far
2011-05-20 13:55:42,334 - INFO - Processed 161900000 reads so far
2011-05-20 13:55:53,474 - INFO - Processed 162000000 reads so far
2011-05-20 13:56:04,493 - INFO - Processed 162100000 reads so far
2011-05-20 13:56:16,189 - INFO - Processed 162200000 reads so far
2011-05-20 13:56:25,029 - INFO - Processed 162300000 reads so far
2011-05-20 13:56:33,949 - INFO - Processed 162400000 reads so far
2011-05-20 13:56:41,951 - INFO - Processed 162500000 reads so far
2011-05-20 13:56:52,217 - INFO - Processed 162600000 reads so far
2011-05-20 13:56:53,255 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:22990039-43010039
2011-05-20 13:57:02,665 - INFO - Processed 162700000 reads so far
2011-05-20 13:57:12,832 - INFO - Processed 162800000 reads so far
2011-05-20 13:57:22,090 - INFO - Processed 162900000 reads so far
2011-05-20 13:57:30,774 - INFO - Processed 163000000 reads so far
2011-05-20 13:57:39,530 - INFO - Processed 163100000 reads so far
2011-05-20 13:57:47,650 - INFO - Processed 163200000 reads so far
2011-05-20 13:57:56,183 - INFO - Processed 163300000 reads so far
2011-05-20 13:58:04,727 - INFO - Processed 163400000 reads so far
2011-05-20 13:58:13,255 - INFO - Processed 163500000 reads so far
2011-05-20 13:58:21,816 - INFO - Processed 163600000 reads so far
2011-05-20 13:58:30,497 - INFO - Processed 163700000 reads so far
2011-05-20 13:58:40,738 - INFO - Processed 163800000 reads so far
2011-05-20 13:58:49,269 - INFO - Processed 163900000 reads so far
2011-05-20 13:58:52,762 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:42990045-63010045
2011-05-20 13:58:58,245 - INFO - Processed 164000000 reads so far
2011-05-20 13:59:07,066 - INFO - Processed 164100000 reads so far
2011-05-20 13:59:15,645 - INFO - Processed 164200000 reads so far
2011-05-20 13:59:24,270 - INFO - Processed 164300000 reads so far
2011-05-20 13:59:34,543 - INFO - Processed 164400000 reads so far
2011-05-20 13:59:43,680 - INFO - Processed 164500000 reads so far
2011-05-20 13:59:53,629 - INFO - Processed 164600000 reads so far
2011-05-20 14:00:05,658 - INFO - Processed 164700000 reads so far
2011-05-20 14:00:15,903 - INFO - Processed 164800000 reads so far
2011-05-20 14:00:24,866 - INFO - Processed 164900000 reads so far
2011-05-20 14:00:34,135 - INFO - Processed 165000000 reads so far
2011-05-20 14:00:45,585 - INFO - Processed 165100000 reads so far
2011-05-20 14:00:48,593 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:62990047-83010047
2011-05-20 14:00:54,381 - INFO - Processed 165200000 reads so far
2011-05-20 14:01:04,530 - INFO - Processed 165300000 reads so far
2011-05-20 14:01:14,666 - INFO - Processed 165400000 reads so far
2011-05-20 14:01:25,857 - INFO - Processed 165500000 reads so far
2011-05-20 14:01:37,098 - INFO - Processed 165600000 reads so far
2011-05-20 14:01:48,263 - INFO - Processed 165700000 reads so far
2011-05-20 14:01:59,071 - INFO - Processed 165800000 reads so far
2011-05-20 14:02:10,140 - INFO - Processed 165900000 reads so far
2011-05-20 14:02:20,225 - INFO - Processed 166000000 reads so far
2011-05-20 14:02:27,953 - INFO - Processed 166100000 reads so far
2011-05-20 14:02:36,730 - INFO - Processed 166200000 reads so far
2011-05-20 14:02:44,474 - INFO - Processed 166300000 reads so far
2011-05-20 14:02:53,570 - INFO - Processed 166400000 reads so far
2011-05-20 14:03:00,454 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:82990073-103010073
2011-05-20 14:03:02,181 - INFO - Processed 166500000 reads so far
2011-05-20 14:03:10,436 - INFO - Processed 166600000 reads so far
2011-05-20 14:03:19,301 - INFO - Processed 166700000 reads so far
2011-05-20 14:03:28,769 - INFO - Processed 166800000 reads so far
2011-05-20 14:03:37,256 - INFO - Processed 166900000 reads so far
2011-05-20 14:03:45,424 - INFO - Processed 167000000 reads so far
2011-05-20 14:03:53,914 - INFO - Processed 167100000 reads so far
2011-05-20 14:04:02,491 - INFO - Processed 167200000 reads so far
2011-05-20 14:04:13,971 - INFO - Processed 167300000 reads so far
2011-05-20 14:04:21,463 - INFO - Processed 167400000 reads so far
2011-05-20 14:04:29,830 - INFO - Processed 167500000 reads so far
2011-05-20 14:04:37,565 - INFO - Processed 167600000 reads so far
2011-05-20 14:04:46,580 - INFO - Processed 167700000 reads so far
2011-05-20 14:04:54,878 - INFO - Processed 167800000 reads so far
2011-05-20 14:04:56,418 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:102990089-123010089
2011-05-20 14:05:02,905 - INFO - Processed 167900000 reads so far
2011-05-20 14:05:10,839 - INFO - Processed 168000000 reads so far
2011-05-20 14:05:19,317 - INFO - Processed 168100000 reads so far
2011-05-20 14:05:28,064 - INFO - Processed 168200000 reads so far
2011-05-20 14:05:35,930 - INFO - Processed 168300000 reads so far
2011-05-20 14:05:44,671 - INFO - Processed 168400000 reads so far
2011-05-20 14:05:52,572 - INFO - Processed 168500000 reads so far
2011-05-20 14:06:01,741 - INFO - Processed 168600000 reads so far
2011-05-20 14:06:10,339 - INFO - Processed 168700000 reads so far
2011-05-20 14:06:20,024 - INFO - Processed 168800000 reads so far
2011-05-20 14:06:29,402 - INFO - Processed 168900000 reads so far
2011-05-20 14:06:37,875 - INFO - Processed 169000000 reads so far
2011-05-20 14:06:46,400 - INFO - Processed 169100000 reads so far
2011-05-20 14:06:51,700 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:122990109-143010109
2011-05-20 14:06:54,559 - INFO - Processed 169200000 reads so far
2011-05-20 14:07:02,511 - INFO - Processed 169300000 reads so far
2011-05-20 14:07:11,204 - INFO - Processed 169400000 reads so far
2011-05-20 14:07:19,533 - INFO - Processed 169500000 reads so far
2011-05-20 14:07:27,872 - INFO - Processed 169600000 reads so far
2011-05-20 14:07:35,887 - INFO - Processed 169700000 reads so far
2011-05-20 14:07:40,904 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8_random:0-20010010
2011-05-20 14:07:44,541 - INFO - Processed 169800000 reads so far
2011-05-20 14:07:52,618 - INFO - Processed 169900000 reads so far
2011-05-20 14:07:55,285 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:2989959-23009959
2011-05-20 14:07:59,469 - INFO - Processed 170000000 reads so far
2011-05-20 14:08:06,795 - INFO - Processed 170100000 reads so far
2011-05-20 14:08:13,093 - INFO - Processed 170200000 reads so far
2011-05-20 14:08:20,082 - INFO - Processed 170300000 reads so far
2011-05-20 14:08:26,474 - INFO - Processed 170400000 reads so far
2011-05-20 14:08:33,353 - INFO - Processed 170500000 reads so far
2011-05-20 14:08:39,732 - INFO - Processed 170600000 reads so far
2011-05-20 14:08:47,454 - INFO - Processed 170700000 reads so far
2011-05-20 14:08:54,192 - INFO - Processed 170800000 reads so far
2011-05-20 14:09:02,125 - INFO - Processed 170900000 reads so far
2011-05-20 14:09:09,384 - INFO - Processed 171000000 reads so far
2011-05-20 14:09:16,223 - INFO - Processed 171100000 reads so far
2011-05-20 14:09:23,619 - INFO - Processed 171200000 reads so far
2011-05-20 14:09:30,878 - INFO - Processed 171300000 reads so far
2011-05-20 14:09:38,242 - INFO - Processed 171400000 reads so far
2011-05-20 14:09:45,542 - INFO - Processed 171500000 reads so far
2011-05-20 14:09:52,017 - INFO - Processed 171600000 reads so far
2011-05-20 14:09:58,320 - INFO - Processed 171700000 reads so far
2011-05-20 14:10:05,048 - INFO - Processed 171800000 reads so far
2011-05-20 14:10:12,768 - INFO - Processed 171900000 reads so far
2011-05-20 14:10:19,585 - INFO - Processed 172000000 reads so far
2011-05-20 14:10:26,210 - INFO - Processed 172100000 reads so far
2011-05-20 14:10:33,285 - INFO - Processed 172200000 reads so far
2011-05-20 14:10:40,429 - INFO - Processed 172300000 reads so far
2011-05-20 14:10:47,651 - INFO - Processed 172400000 reads so far
2011-05-20 14:10:55,225 - INFO - Processed 172500000 reads so far
2011-05-20 14:11:02,711 - INFO - Processed 172600000 reads so far
2011-05-20 14:11:12,078 - INFO - Processed 172700000 reads so far
2011-05-20 14:11:21,021 - INFO - Processed 172800000 reads so far
2011-05-20 14:11:29,941 - INFO - Processed 172900000 reads so far
2011-05-20 14:11:39,791 - INFO - Processed 173000000 reads so far
2011-05-20 14:11:49,342 - INFO - Processed 173100000 reads so far
2011-05-20 14:11:59,362 - INFO - Processed 173200000 reads so far
2011-05-20 14:12:08,515 - INFO - Processed 173300000 reads so far
2011-05-20 14:12:18,641 - INFO - Processed 173400000 reads so far
2011-05-20 14:12:27,969 - INFO - Processed 173500000 reads so far
2011-05-20 14:12:35,192 - INFO - Processed 173600000 reads so far
2011-05-20 14:12:43,263 - INFO - Processed 173700000 reads so far
2011-05-20 14:12:52,419 - INFO - Processed 173800000 reads so far
2011-05-20 14:13:02,159 - INFO - Processed 173900000 reads so far
2011-05-20 14:13:11,010 - INFO - Processed 174000000 reads so far
2011-05-20 14:13:19,822 - INFO - Processed 174100000 reads so far
2011-05-20 14:13:30,302 - INFO - Processed 174200000 reads so far
2011-05-20 14:13:39,762 - INFO - Processed 174300000 reads so far
2011-05-20 14:13:51,077 - INFO - Processed 174400000 reads so far
2011-05-20 14:13:58,615 - INFO - Processed 174500000 reads so far
2011-05-20 14:14:06,181 - INFO - Processed 174600000 reads so far
2011-05-20 14:14:12,238 - INFO - Processed 174700000 reads so far
2011-05-20 14:14:20,984 - INFO - Processed 174800000 reads so far
2011-05-20 14:14:28,129 - INFO - Processed 174900000 reads so far
2011-05-20 14:14:35,482 - INFO - Processed 175000000 reads so far
2011-05-20 14:14:43,385 - INFO - Processed 175100000 reads so far
2011-05-20 14:14:51,395 - INFO - Processed 175200000 reads so far
2011-05-20 14:15:00,782 - INFO - Processed 175300000 reads so far
2011-05-20 14:15:09,420 - INFO - Processed 175400000 reads so far
2011-05-20 14:15:17,667 - INFO - Processed 175500000 reads so far
2011-05-20 14:15:26,682 - INFO - Processed 175600000 reads so far
2011-05-20 14:15:33,645 - INFO - Processed 175700000 reads so far
2011-05-20 14:15:41,193 - INFO - Processed 175800000 reads so far
2011-05-20 14:15:49,862 - INFO - Processed 175900000 reads so far
2011-05-20 14:15:58,368 - INFO - Processed 176000000 reads so far
2011-05-20 14:16:05,808 - INFO - Processed 176100000 reads so far
2011-05-20 14:16:15,901 - INFO - Processed 176200000 reads so far
2011-05-20 14:16:24,455 - INFO - Processed 176300000 reads so far
2011-05-20 14:16:30,774 - INFO - Processed 176400000 reads so far
2011-05-20 14:16:38,369 - INFO - Processed 176500000 reads so far
2011-05-20 14:16:47,011 - INFO - Processed 176600000 reads so far
2011-05-20 14:16:53,473 - INFO - Processed 176700000 reads so far
2011-05-20 14:16:59,573 - INFO - Processed 176800000 reads so far
2011-05-20 14:17:08,178 - INFO - Processed 176900000 reads so far
2011-05-20 14:17:16,764 - INFO - Processed 177000000 reads so far
2011-05-20 14:17:25,774 - INFO - Processed 177100000 reads so far
2011-05-20 14:17:35,147 - INFO - Processed 177200000 reads so far
2011-05-20 14:17:41,974 - INFO - Processed 177300000 reads so far
2011-05-20 14:17:49,013 - INFO - Processed 177400000 reads so far
2011-05-20 14:17:56,833 - INFO - Processed 177500000 reads so far
2011-05-20 14:18:04,951 - INFO - Processed 177600000 reads so far
2011-05-20 14:18:11,424 - INFO - Processed 177700000 reads so far
2011-05-20 14:18:19,084 - INFO - Processed 177800000 reads so far
2011-05-20 14:18:26,641 - INFO - Processed 177900000 reads so far
2011-05-20 14:18:33,431 - INFO - Processed 178000000 reads so far
2011-05-20 14:18:41,680 - INFO - Processed 178100000 reads so far
2011-05-20 14:18:50,622 - INFO - Processed 178200000 reads so far
2011-05-20 14:18:59,666 - INFO - Processed 178300000 reads so far
2011-05-20 14:19:05,908 - INFO - Processed 178400000 reads so far
2011-05-20 14:19:14,285 - INFO - Processed 178500000 reads so far
2011-05-20 14:19:20,841 - INFO - Processed 178600000 reads so far
2011-05-20 14:19:29,684 - INFO - Processed 178700000 reads so far
2011-05-20 14:19:38,474 - INFO - Processed 178800000 reads so far
2011-05-20 14:19:46,186 - INFO - Processed 178900000 reads so far
2011-05-20 14:19:52,311 - INFO - Processed 179000000 reads so far
2011-05-20 14:20:00,886 - INFO - Processed 179100000 reads so far
2011-05-20 14:20:07,416 - INFO - Processed 179200000 reads so far
2011-05-20 14:20:13,238 - INFO - Processed 179300000 reads so far
2011-05-20 14:20:19,017 - INFO - Processed 179400000 reads so far
2011-05-20 14:20:25,194 - INFO - Processed 179500000 reads so far
2011-05-20 14:20:33,130 - INFO - Processed 179600000 reads so far
2011-05-20 14:20:40,807 - INFO - Processed 179700000 reads so far
2011-05-20 14:20:49,028 - INFO - Processed 179800000 reads so far
2011-05-20 14:20:55,971 - INFO - Processed 179900000 reads so far
2011-05-20 14:21:05,681 - INFO - Processed 180000000 reads so far
2011-05-20 14:21:15,762 - INFO - Processed 180100000 reads so far
2011-05-20 14:21:26,749 - INFO - Processed 180200000 reads so far
2011-05-20 14:21:38,295 - INFO - Processed 180300000 reads so far
2011-05-20 14:21:49,257 - INFO - Processed 180400000 reads so far
2011-05-20 14:22:00,445 - INFO - Processed 180500000 reads so far
2011-05-20 14:22:11,731 - INFO - Processed 180600000 reads so far
2011-05-20 14:22:23,174 - INFO - Processed 180700000 reads so far
2011-05-20 14:22:32,186 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:22989969-43009969
2011-05-20 14:22:34,354 - INFO - Processed 180800000 reads so far
2011-05-20 14:22:45,246 - INFO - Processed 180900000 reads so far
2011-05-20 14:22:56,175 - INFO - Processed 181000000 reads so far
2011-05-20 14:23:07,215 - INFO - Processed 181100000 reads so far
2011-05-20 14:23:19,916 - INFO - Processed 181200000 reads so far
2011-05-20 14:23:30,908 - INFO - Processed 181300000 reads so far
2011-05-20 14:23:42,008 - INFO - Processed 181400000 reads so far
2011-05-20 14:23:53,008 - INFO - Processed 181500000 reads so far
2011-05-20 14:24:02,111 - INFO - Processed 181600000 reads so far
2011-05-20 14:24:09,506 - INFO - Processed 181700000 reads so far
2011-05-20 14:24:18,668 - INFO - Processed 181800000 reads so far
2011-05-20 14:24:29,359 - INFO - Processed 181900000 reads so far
2011-05-20 14:24:41,746 - INFO - Processed 182000000 reads so far
2011-05-20 14:24:53,002 - INFO - Processed 182100000 reads so far
2011-05-20 14:25:04,567 - INFO - Processed 182200000 reads so far
2011-05-20 14:25:14,986 - INFO - Processed 182300000 reads so far
2011-05-20 14:25:23,258 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:42989983-63009983
2011-05-20 14:25:26,230 - INFO - Processed 182400000 reads so far
2011-05-20 14:25:38,479 - INFO - Processed 182500000 reads so far
2011-05-20 14:25:52,787 - INFO - Processed 182600000 reads so far
2011-05-20 14:26:03,891 - INFO - Processed 182700000 reads so far
2011-05-20 14:26:15,157 - INFO - Processed 182800000 reads so far
2011-05-20 14:26:27,003 - INFO - Processed 182900000 reads so far
2011-05-20 14:26:38,326 - INFO - Processed 183000000 reads so far
2011-05-20 14:26:49,519 - INFO - Processed 183100000 reads so far
2011-05-20 14:27:00,624 - INFO - Processed 183200000 reads so far
2011-05-20 14:27:12,346 - INFO - Processed 183300000 reads so far
2011-05-20 14:27:23,618 - INFO - Processed 183400000 reads so far
2011-05-20 14:27:33,531 - INFO - Processed 183500000 reads so far
2011-05-20 14:27:43,309 - INFO - Processed 183600000 reads so far
2011-05-20 14:27:54,508 - INFO - Processed 183700000 reads so far
2011-05-20 14:27:58,914 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:62990013-83010013
2011-05-20 14:28:05,947 - INFO - Processed 183800000 reads so far
2011-05-20 14:28:17,327 - INFO - Processed 183900000 reads so far
2011-05-20 14:28:28,609 - INFO - Processed 184000000 reads so far
2011-05-20 14:28:39,750 - INFO - Processed 184100000 reads so far
2011-05-20 14:28:49,710 - INFO - Processed 184200000 reads so far
2011-05-20 14:29:00,894 - INFO - Processed 184300000 reads so far
2011-05-20 14:29:12,056 - INFO - Processed 184400000 reads so far
2011-05-20 14:29:23,146 - INFO - Processed 184500000 reads so far
2011-05-20 14:29:34,231 - INFO - Processed 184600000 reads so far
2011-05-20 14:29:45,464 - INFO - Processed 184700000 reads so far
2011-05-20 14:29:57,052 - INFO - Processed 184800000 reads so far
2011-05-20 14:30:07,914 - INFO - Processed 184900000 reads so far
2011-05-20 14:30:17,529 - INFO - Processed 185000000 reads so far
2011-05-20 14:30:25,967 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:82990014-103010014
2011-05-20 14:30:27,982 - INFO - Processed 185100000 reads so far
2011-05-20 14:30:39,084 - INFO - Processed 185200000 reads so far
2011-05-20 14:30:50,787 - INFO - Processed 185300000 reads so far
2011-05-20 14:31:01,288 - INFO - Processed 185400000 reads so far
2011-05-20 14:31:21,552 - INFO - Processed 185500000 reads so far
2011-05-20 14:31:41,431 - INFO - Processed 185600000 reads so far
2011-05-20 14:31:50,700 - INFO - Processed 185700000 reads so far
2011-05-20 14:32:00,416 - INFO - Processed 185800000 reads so far
2011-05-20 14:32:08,480 - INFO - Processed 185900000 reads so far
2011-05-20 14:32:17,569 - INFO - Processed 186000000 reads so far
2011-05-20 14:32:27,395 - INFO - Processed 186100000 reads so far
2011-05-20 14:32:36,681 - INFO - Processed 186200000 reads so far
2011-05-20 14:32:45,231 - INFO - Processed 186300000 reads so far
2011-05-20 14:32:54,080 - INFO - Processed 186400000 reads so far
2011-05-20 14:32:58,009 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:102990018-123010018
2011-05-20 14:33:02,547 - INFO - Processed 186500000 reads so far
2011-05-20 14:33:12,657 - INFO - Processed 186600000 reads so far
2011-05-20 14:33:23,487 - INFO - Processed 186700000 reads so far
2011-05-20 14:33:33,358 - INFO - Processed 186800000 reads so far
2011-05-20 14:33:43,079 - INFO - Processed 186900000 reads so far
2011-05-20 14:33:53,464 - INFO - Processed 187000000 reads so far
2011-05-20 14:34:02,579 - INFO - Processed 187100000 reads so far
2011-05-20 14:34:13,394 - INFO - Processed 187200000 reads so far
2011-05-20 14:34:21,197 - INFO - Processed 187300000 reads so far
2011-05-20 14:34:29,412 - INFO - Processed 187400000 reads so far
2011-05-20 14:34:40,223 - INFO - Processed 187500000 reads so far
2011-05-20 14:34:50,815 - INFO - Processed 187600000 reads so far
2011-05-20 14:35:01,140 - INFO - Processed 187700000 reads so far
2011-05-20 14:35:10,057 - INFO - Processed 187800000 reads so far
2011-05-20 14:35:11,206 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:122990024-143010024
2011-05-20 14:35:18,215 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9_random:0-20010033
2011-05-20 14:35:18,898 - INFO - Processed 187900000 reads so far
2011-05-20 14:35:22,853 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrM:0-20010000
2011-05-20 14:35:26,698 - INFO - Processed 188000000 reads so far
2011-05-20 14:35:30,484 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrUn_random:0-20010002
2011-05-20 14:35:34,684 - INFO - Processed 188100000 reads so far
2011-05-20 14:35:43,303 - INFO - Processed 188200000 reads so far
2011-05-20 14:35:51,955 - INFO - Processed 188300000 reads so far
2011-05-20 14:35:59,453 - INFO - Processed 188400000 reads so far
2011-05-20 14:36:08,401 - INFO - Processed 188500000 reads so far
2011-05-20 14:36:15,684 - INFO - Processed 188600000 reads so far
2011-05-20 14:36:20,511 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:2990000-23010000
2011-05-20 14:36:23,271 - INFO - Processed 188700000 reads so far
2011-05-20 14:36:31,974 - INFO - Processed 188800000 reads so far
2011-05-20 14:36:41,946 - INFO - Processed 188900000 reads so far
2011-05-20 14:36:50,295 - INFO - Processed 189000000 reads so far
2011-05-20 14:37:00,989 - INFO - Processed 189100000 reads so far
2011-05-20 14:37:11,686 - INFO - Processed 189200000 reads so far
2011-05-20 14:37:21,685 - INFO - Processed 189300000 reads so far
2011-05-20 14:37:30,979 - INFO - Processed 189400000 reads so far
2011-05-20 14:37:41,449 - INFO - Processed 189500000 reads so far
2011-05-20 14:37:50,877 - INFO - Processed 189600000 reads so far
2011-05-20 14:38:00,454 - INFO - Processed 189700000 reads so far
2011-05-20 14:38:10,048 - INFO - Processed 189800000 reads so far
2011-05-20 14:38:21,537 - INFO - Processed 189900000 reads so far
2011-05-20 14:38:32,781 - INFO - Processed 190000000 reads so far
2011-05-20 14:38:43,251 - INFO - Processed 190100000 reads so far
2011-05-20 14:38:51,207 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:22990018-43010018
2011-05-20 14:38:55,383 - INFO - Processed 190200000 reads so far
2011-05-20 14:39:06,448 - INFO - Processed 190300000 reads so far
2011-05-20 14:39:17,272 - INFO - Processed 190400000 reads so far
2011-05-20 14:39:28,893 - INFO - Processed 190500000 reads so far
2011-05-20 14:39:39,773 - INFO - Processed 190600000 reads so far
2011-05-20 14:39:50,091 - INFO - Processed 190700000 reads so far
2011-05-20 14:40:00,619 - INFO - Processed 190800000 reads so far
2011-05-20 14:40:10,199 - INFO - Processed 190900000 reads so far
2011-05-20 14:40:20,674 - INFO - Processed 191000000 reads so far
2011-05-20 14:40:31,209 - INFO - Processed 191100000 reads so far
2011-05-20 14:40:42,083 - INFO - Processed 191200000 reads so far
2011-05-20 14:40:53,965 - INFO - Processed 191300000 reads so far
2011-05-20 14:41:05,119 - INFO - Processed 191400000 reads so far
2011-05-20 14:41:17,131 - INFO - Processed 191500000 reads so far
2011-05-20 14:41:28,387 - INFO - Processed 191600000 reads so far
2011-05-20 14:41:30,520 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:42990028-63010028
2011-05-20 14:41:39,593 - INFO - Processed 191700000 reads so far
2011-05-20 14:41:50,760 - INFO - Processed 191800000 reads so far
2011-05-20 14:42:00,596 - INFO - Processed 191900000 reads so far
2011-05-20 14:42:12,802 - INFO - Processed 192000000 reads so far
2011-05-20 14:42:25,440 - INFO - Processed 192100000 reads so far
2011-05-20 14:42:36,176 - INFO - Processed 192200000 reads so far
2011-05-20 14:42:43,413 - INFO - Processed 192300000 reads so far
2011-05-20 14:42:52,770 - INFO - Processed 192400000 reads so far
2011-05-20 14:43:00,933 - INFO - Processed 192500000 reads so far
2011-05-20 14:43:09,855 - INFO - Processed 192600000 reads so far
2011-05-20 14:43:20,161 - INFO - Processed 192700000 reads so far
2011-05-20 14:43:29,408 - INFO - Processed 192800000 reads so far
2011-05-20 14:43:38,006 - INFO - Processed 192900000 reads so far
2011-05-20 14:43:43,761 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:62990047-83010047
2011-05-20 14:43:46,959 - INFO - Processed 193000000 reads so far
2011-05-20 14:43:56,364 - INFO - Processed 193100000 reads so far
2011-05-20 14:44:04,656 - INFO - Processed 193200000 reads so far
2011-05-20 14:44:12,382 - INFO - Processed 193300000 reads so far
2011-05-20 14:44:20,301 - INFO - Processed 193400000 reads so far
2011-05-20 14:44:30,465 - INFO - Processed 193500000 reads so far
2011-05-20 14:44:40,873 - INFO - Processed 193600000 reads so far
2011-05-20 14:44:47,641 - INFO - Processed 193700000 reads so far
2011-05-20 14:44:56,576 - INFO - Processed 193800000 reads so far
2011-05-20 14:45:06,635 - INFO - Processed 193900000 reads so far
2011-05-20 14:45:14,301 - INFO - Processed 194000000 reads so far
2011-05-20 14:45:24,241 - INFO - Processed 194100000 reads so far
2011-05-20 14:45:34,878 - INFO - Processed 194200000 reads so far
2011-05-20 14:45:42,986 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:82990070-103010070
2011-05-20 14:45:44,717 - INFO - Processed 194300000 reads so far
2011-05-20 14:45:51,549 - INFO - Processed 194400000 reads so far
2011-05-20 14:45:58,401 - INFO - Processed 194500000 reads so far
2011-05-20 14:46:08,147 - INFO - Processed 194600000 reads so far
2011-05-20 14:46:20,903 - INFO - Processed 194700000 reads so far
2011-05-20 14:46:29,582 - INFO - Processed 194800000 reads so far
2011-05-20 14:46:37,930 - INFO - Processed 194900000 reads so far
2011-05-20 14:46:53,201 - INFO - Processed 195000000 reads so far
2011-05-20 14:47:00,532 - INFO - Processed 195100000 reads so far
2011-05-20 14:47:08,481 - INFO - Processed 195200000 reads so far
2011-05-20 14:47:16,279 - INFO - Processed 195300000 reads so far
2011-05-20 14:47:26,862 - INFO - Processed 195400000 reads so far
2011-05-20 14:47:36,282 - INFO - Processed 195500000 reads so far
2011-05-20 14:47:43,159 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:102990078-123010078
2011-05-20 14:47:44,218 - INFO - Processed 195600000 reads so far
2011-05-20 14:47:55,533 - INFO - Processed 195700000 reads so far
2011-05-20 14:48:06,727 - INFO - Processed 195800000 reads so far
2011-05-20 14:48:18,445 - INFO - Processed 195900000 reads so far
2011-05-20 14:48:29,196 - INFO - Processed 196000000 reads so far
2011-05-20 14:48:37,265 - INFO - Processed 196100000 reads so far
2011-05-20 14:48:46,125 - INFO - Processed 196200000 reads so far
2011-05-20 14:48:55,043 - INFO - Processed 196300000 reads so far
2011-05-20 14:49:04,608 - INFO - Processed 196400000 reads so far
2011-05-20 14:49:16,283 - INFO - Processed 196500000 reads so far
2011-05-20 14:49:27,248 - INFO - Processed 196600000 reads so far
2011-05-20 14:49:38,093 - INFO - Processed 196700000 reads so far
2011-05-20 14:49:49,567 - INFO - Processed 196800000 reads so far
2011-05-20 14:49:52,394 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:122990091-143010091
2011-05-20 14:50:00,777 - INFO - Processed 196900000 reads so far
2011-05-20 14:50:10,415 - INFO - Processed 197000000 reads so far
2011-05-20 14:50:21,672 - INFO - Processed 197100000 reads so far
2011-05-20 14:50:33,494 - INFO - Processed 197200000 reads so far
2011-05-20 14:50:46,089 - INFO - Processed 197300000 reads so far
2011-05-20 14:50:59,521 - INFO - Processed 197400000 reads so far
2011-05-20 14:51:15,124 - INFO - Processed 197500000 reads so far
2011-05-20 14:51:26,429 - INFO - Processed 197600000 reads so far
2011-05-20 14:51:37,511 - INFO - Processed 197700000 reads so far
2011-05-20 14:51:49,329 - INFO - Processed 197800000 reads so far
2011-05-20 14:52:00,560 - INFO - Processed 197900000 reads so far
2011-05-20 14:52:10,629 - INFO - Processed 198000000 reads so far
2011-05-20 14:52:21,676 - INFO - Processed 198100000 reads so far
2011-05-20 14:52:32,914 - INFO - Processed 198200000 reads so far
2011-05-20 14:52:33,801 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:142990092-163010092
2011-05-20 14:52:46,436 - INFO - Processed 198300000 reads so far
2011-05-20 14:52:57,580 - INFO - Processed 198400000 reads so far
2011-05-20 14:53:08,377 - INFO - Processed 198500000 reads so far
2011-05-20 14:53:19,007 - INFO - Processed 198600000 reads so far
2011-05-20 14:53:28,918 - INFO - Processed 198700000 reads so far
2011-05-20 14:53:36,110 - INFO - Processed 198800000 reads so far
2011-05-20 14:53:46,762 - INFO - Processed 198900000 reads so far
2011-05-20 14:53:59,308 - INFO - Processed 199000000 reads so far
2011-05-20 14:54:10,494 - INFO - Processed 199100000 reads so far
2011-05-20 14:54:21,756 - INFO - Processed 199200000 reads so far
2011-05-20 14:54:33,947 - INFO - Processed 199300000 reads so far
2011-05-20 14:54:44,912 - INFO - Processed 199400000 reads so far
2011-05-20 14:54:55,300 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:162990093-183010093
2011-05-20 14:54:55,637 - INFO - Processed 199500000 reads so far
2011-05-20 14:55:06,294 - INFO - Processed 199600000 reads so far
2011-05-20 14:55:17,845 - INFO - Processed 199700000 reads so far
2011-05-20 14:55:27,549 - INFO - Processed 199800000 reads so far
2011-05-20 14:55:31,034 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX_random:0-20010000
2011-05-20 14:55:37,143 - INFO - Processed 199900000 reads so far
2011-05-20 14:55:38,654 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrY:0-20010744
2011-05-20 14:55:40,406 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrY_random:49018-20069018
2011-05-20 14:55:43,559 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrY_random:20109274-40129274
2011-05-20 14:55:45,731 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrY_random:40111120-60131120
2011-05-20 14:55:48,629 - INFO - Processed 200000000 reads so far
2011-05-20 14:55:53,297 - INFO - Processed 200100000 reads so far
2011-05-20 14:55:57,726 - INFO - Processed 200200000 reads so far
2011-05-20 14:56:02,179 - INFO - Processed 200300000 reads so far
2011-05-20 14:56:06,943 - INFO - Processed 200400000 reads so far
2011-05-20 14:56:11,575 - INFO - Processed 200500000 reads so far
2011-05-20 14:56:15,767 - INFO - Processed 200600000 reads so far
2011-05-20 14:56:19,949 - INFO - Processed 200700000 reads so far
2011-05-20 14:56:24,131 - INFO - Processed 200800000 reads so far
2011-05-20 14:56:28,389 - INFO - Processed 200900000 reads so far
2011-05-20 14:56:33,157 - INFO - Processed 201000000 reads so far
2011-05-20 14:56:37,933 - INFO - Processed 201100000 reads so far
2011-05-20 14:56:42,527 - INFO - Processed 201200000 reads so far
2011-05-20 14:56:47,261 - INFO - Processed 201300000 reads so far
2011-05-20 14:56:52,043 - INFO - Processed 201400000 reads so far
2011-05-20 14:56:57,175 - INFO - Processed 201500000 reads so far
2011-05-20 14:57:01,833 - INFO - Processed 201600000 reads so far
2011-05-20 14:57:06,381 - INFO - Processed 201700000 reads so far
2011-05-20 14:57:10,718 - INFO - Processed 201800000 reads so far
2011-05-20 14:57:14,989 - INFO - Processed 201900000 reads so far
2011-05-20 14:57:19,744 - INFO - Processed 202000000 reads so far
2011-05-20 14:57:24,543 - INFO - Processed 202100000 reads so far
2011-05-20 14:57:29,149 - INFO - Processed 202200000 reads so far
2011-05-20 14:57:33,110 - INFO - Processed 202300000 reads so far
2011-05-20 14:57:35,109 - INFO - Finished loading data. Outputting QC metrics
2011-05-20 14:58:07,051 - INFO - Finished outputting QC metrics
2011-05-20 14:58:07,213 - INFO - Finished generating QC metrics