2011-05-20 05:39:08,541 - INFO - Generating QC metrics for BAM File ['WTCHG_13232.bam']
2011-05-20 05:39:08,541 - INFO - Output will go to WTCHG_13232.qc.txt.tmp
2011-05-20 05:39:08,542 - INFO - Reading GC Map from file /data/Genomes/gcMap/Mouse37.gcMap.gz
2011-05-20 05:42:15,774 - INFO - Finished reading GC Map
2011-05-20 05:42:15,774 - INFO - Reading CDS from exon definition file /data/Genomes/annotation/Mouse37.refGene.txt.gz
2011-05-20 05:42:18,731 - INFO - Read 382138 exons (33804740 nucleotides) for 32 chromosomes
2011-05-20 05:42:18,732 - INFO - Computing coverage cut-off
2011-05-20 05:42:18,733 - INFO - Retrieving BAM file coverage info from samtools pileup
2011-05-20 05:42:28,626 - INFO - Processed 1000000 pile-up sites
2011-05-20 05:42:32,483 - INFO - Processed 2000000 pile-up sites
2011-05-20 05:42:36,213 - INFO - Processed 3000000 pile-up sites
2011-05-20 05:42:40,122 - INFO - Processed 4000000 pile-up sites
2011-05-20 05:42:44,030 - INFO - Processed 5000000 pile-up sites
2011-05-20 05:42:47,960 - INFO - Processed 6000000 pile-up sites
2011-05-20 05:42:52,585 - INFO - Processed 7000000 pile-up sites
2011-05-20 05:42:57,190 - INFO - Processed 8000000 pile-up sites
2011-05-20 05:43:01,955 - INFO - Processed 9000000 pile-up sites
2011-05-20 05:43:06,502 - INFO - Processed 10000000 pile-up sites
2011-05-20 05:43:09,837 - INFO - Processed 11000000 pile-up sites
2011-05-20 05:43:13,707 - INFO - Processed 12000000 pile-up sites
2011-05-20 05:43:17,779 - INFO - Processed 13000000 pile-up sites
2011-05-20 05:43:21,525 - INFO - Processed 14000000 pile-up sites
2011-05-20 05:43:25,110 - INFO - Processed 15000000 pile-up sites
2011-05-20 05:43:28,831 - INFO - Processed 16000000 pile-up sites
2011-05-20 05:43:33,290 - INFO - Processed 17000000 pile-up sites
2011-05-20 05:43:37,358 - INFO - Processed 18000000 pile-up sites
2011-05-20 05:43:41,083 - INFO - Processed 19000000 pile-up sites
2011-05-20 05:43:46,804 - INFO - Processed 20000000 pile-up sites
2011-05-20 05:43:51,159 - INFO - Processed 21000000 pile-up sites
2011-05-20 05:43:55,039 - INFO - Processed 22000000 pile-up sites
2011-05-20 05:43:58,967 - INFO - Processed 23000000 pile-up sites
2011-05-20 05:44:02,872 - INFO - Processed 24000000 pile-up sites
2011-05-20 05:44:06,928 - INFO - Processed 25000000 pile-up sites
2011-05-20 05:44:10,660 - INFO - Processed 26000000 pile-up sites
2011-05-20 05:44:14,920 - INFO - Processed 27000000 pile-up sites
2011-05-20 05:44:18,756 - INFO - Processed 28000000 pile-up sites
2011-05-20 05:44:23,271 - INFO - Processed 29000000 pile-up sites
2011-05-20 05:44:27,473 - INFO - Processed 30000000 pile-up sites
2011-05-20 05:44:31,105 - INFO - Processed 31000000 pile-up sites
2011-05-20 05:44:35,137 - INFO - Processed 32000000 pile-up sites
2011-05-20 05:44:39,224 - INFO - Processed 33000000 pile-up sites
2011-05-20 05:44:43,092 - INFO - Processed 34000000 pile-up sites
2011-05-20 05:44:46,962 - INFO - Processed 35000000 pile-up sites
2011-05-20 05:44:50,823 - INFO - Processed 36000000 pile-up sites
2011-05-20 05:44:54,700 - INFO - Processed 37000000 pile-up sites
2011-05-20 05:44:58,574 - INFO - Processed 38000000 pile-up sites
2011-05-20 05:45:00,504 - INFO - Finished processing pile-up on 38497731 sites (200000000 nucleotides)
2011-05-20 05:45:00,505 - INFO - Coverage cut-off value is 18
2011-05-20 05:45:00,505 - INFO - Loading data into QC data manager
2011-05-20 05:45:00,736 - INFO - Reading data from BAM file WTCHG_13232.bam. All reads in file will be read
2011-05-20 05:45:00,915 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:2990022-23010022
2011-05-20 05:45:09,311 - INFO - Processed 100000 reads so far
2011-05-20 05:45:16,348 - INFO - Processed 200000 reads so far
2011-05-20 05:45:23,357 - INFO - Processed 300000 reads so far
2011-05-20 05:45:30,169 - INFO - Processed 400000 reads so far
2011-05-20 05:45:36,980 - INFO - Processed 500000 reads so far
2011-05-20 05:45:46,231 - INFO - Processed 600000 reads so far
2011-05-20 05:45:53,211 - INFO - Processed 700000 reads so far
2011-05-20 05:46:00,077 - INFO - Processed 800000 reads so far
2011-05-20 05:46:07,226 - INFO - Processed 900000 reads so far
2011-05-20 05:46:14,279 - INFO - Processed 1000000 reads so far
2011-05-20 05:46:15,539 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:22990027-43010027
2011-05-20 05:46:22,062 - INFO - Processed 1100000 reads so far
2011-05-20 05:46:29,846 - INFO - Processed 1200000 reads so far
2011-05-20 05:46:39,641 - INFO - Processed 1300000 reads so far
2011-05-20 05:46:48,328 - INFO - Processed 1400000 reads so far
2011-05-20 05:46:58,426 - INFO - Processed 1500000 reads so far
2011-05-20 05:47:06,741 - INFO - Processed 1600000 reads so far
2011-05-20 05:47:15,637 - INFO - Processed 1700000 reads so far
2011-05-20 05:47:25,491 - INFO - Processed 1800000 reads so far
2011-05-20 05:47:36,407 - INFO - Processed 1900000 reads so far
2011-05-20 05:47:47,624 - INFO - Processed 2000000 reads so far
2011-05-20 05:47:49,165 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:42990036-63010036
2011-05-20 05:48:02,049 - INFO - Processed 2100000 reads so far
2011-05-20 05:48:16,843 - INFO - Processed 2200000 reads so far
2011-05-20 05:48:27,797 - INFO - Processed 2300000 reads so far
2011-05-20 05:48:39,741 - INFO - Processed 2400000 reads so far
2011-05-20 05:48:51,205 - INFO - Processed 2500000 reads so far
2011-05-20 05:49:01,133 - INFO - Processed 2600000 reads so far
2011-05-20 05:49:14,733 - INFO - Processed 2700000 reads so far
2011-05-20 05:49:25,662 - INFO - Processed 2800000 reads so far
2011-05-20 05:49:40,958 - INFO - Processed 2900000 reads so far
2011-05-20 05:49:52,114 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:62990088-83010088
2011-05-20 05:49:52,865 - INFO - Processed 3000000 reads so far
2011-05-20 05:50:02,284 - INFO - Processed 3100000 reads so far
2011-05-20 05:50:12,176 - INFO - Processed 3200000 reads so far
2011-05-20 05:50:24,384 - INFO - Processed 3300000 reads so far
2011-05-20 05:50:34,646 - INFO - Processed 3400000 reads so far
2011-05-20 05:50:44,014 - INFO - Processed 3500000 reads so far
2011-05-20 05:50:54,300 - INFO - Processed 3600000 reads so far
2011-05-20 05:51:02,605 - INFO - Processed 3700000 reads so far
2011-05-20 05:51:14,586 - INFO - Processed 3800000 reads so far
2011-05-20 05:51:28,600 - INFO - Processed 3900000 reads so far
2011-05-20 05:51:38,650 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:82990095-103010095
2011-05-20 05:51:40,774 - INFO - Processed 4000000 reads so far
2011-05-20 05:51:49,101 - INFO - Processed 4100000 reads so far
2011-05-20 05:52:01,872 - INFO - Processed 4200000 reads so far
2011-05-20 05:52:10,597 - INFO - Processed 4300000 reads so far
2011-05-20 05:52:24,413 - INFO - Processed 4400000 reads so far
2011-05-20 05:52:37,493 - INFO - Processed 4500000 reads so far
2011-05-20 05:52:47,234 - INFO - Processed 4600000 reads so far
2011-05-20 05:52:57,805 - INFO - Processed 4700000 reads so far
2011-05-20 05:53:05,824 - INFO - Processed 4800000 reads so far
2011-05-20 05:53:15,186 - INFO - Processed 4900000 reads so far
2011-05-20 05:53:23,277 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:102990125-123010125
2011-05-20 05:53:23,357 - INFO - Processed 5000000 reads so far
2011-05-20 05:53:31,843 - INFO - Processed 5100000 reads so far
2011-05-20 05:53:41,618 - INFO - Processed 5200000 reads so far
2011-05-20 05:53:53,546 - INFO - Processed 5300000 reads so far
2011-05-20 05:54:04,503 - INFO - Processed 5400000 reads so far
2011-05-20 05:54:15,358 - INFO - Processed 5500000 reads so far
2011-05-20 05:54:27,084 - INFO - Processed 5600000 reads so far
2011-05-20 05:54:36,136 - INFO - Processed 5700000 reads so far
2011-05-20 05:54:48,705 - INFO - Processed 5800000 reads so far
2011-05-20 05:55:00,020 - INFO - Processed 5900000 reads so far
2011-05-20 05:55:07,630 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr10:122990129-143010129
2011-05-20 05:55:09,505 - INFO - Processed 6000000 reads so far
2011-05-20 05:55:17,772 - INFO - Processed 6100000 reads so far
2011-05-20 05:55:28,270 - INFO - Processed 6200000 reads so far
2011-05-20 05:55:37,742 - INFO - Processed 6300000 reads so far
2011-05-20 05:55:40,882 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:2989997-23009997
2011-05-20 05:55:46,517 - INFO - Processed 6400000 reads so far
2011-05-20 05:55:54,849 - INFO - Processed 6500000 reads so far
2011-05-20 05:56:03,887 - INFO - Processed 6600000 reads so far
2011-05-20 05:56:12,222 - INFO - Processed 6700000 reads so far
2011-05-20 05:56:22,000 - INFO - Processed 6800000 reads so far
2011-05-20 05:56:32,889 - INFO - Processed 6900000 reads so far
2011-05-20 05:56:42,646 - INFO - Processed 7000000 reads so far
2011-05-20 05:56:52,471 - INFO - Processed 7100000 reads so far
2011-05-20 05:57:03,916 - INFO - Processed 7200000 reads so far
2011-05-20 05:57:13,092 - INFO - Processed 7300000 reads so far
2011-05-20 05:57:22,760 - INFO - Processed 7400000 reads so far
2011-05-20 05:57:29,358 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:22990020-43010020
2011-05-20 05:57:32,152 - INFO - Processed 7500000 reads so far
2011-05-20 05:57:40,528 - INFO - Processed 7600000 reads so far
2011-05-20 05:57:51,409 - INFO - Processed 7700000 reads so far
2011-05-20 05:58:00,007 - INFO - Processed 7800000 reads so far
2011-05-20 05:58:09,495 - INFO - Processed 7900000 reads so far
2011-05-20 05:58:17,241 - INFO - Processed 8000000 reads so far
2011-05-20 05:58:28,285 - INFO - Processed 8100000 reads so far
2011-05-20 05:58:36,962 - INFO - Processed 8200000 reads so far
2011-05-20 05:58:47,819 - INFO - Processed 8300000 reads so far
2011-05-20 05:58:57,543 - INFO - Processed 8400000 reads so far
2011-05-20 05:59:05,113 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:42990057-63010057
2011-05-20 05:59:09,657 - INFO - Processed 8500000 reads so far
2011-05-20 05:59:19,807 - INFO - Processed 8600000 reads so far
2011-05-20 05:59:27,969 - INFO - Processed 8700000 reads so far
2011-05-20 05:59:36,659 - INFO - Processed 8800000 reads so far
2011-05-20 05:59:48,790 - INFO - Processed 8900000 reads so far
2011-05-20 05:59:57,359 - INFO - Processed 9000000 reads so far
2011-05-20 06:00:04,403 - INFO - Processed 9100000 reads so far
2011-05-20 06:00:13,166 - INFO - Processed 9200000 reads so far
2011-05-20 06:00:23,891 - INFO - Processed 9300000 reads so far
2011-05-20 06:00:33,061 - INFO - Processed 9400000 reads so far
2011-05-20 06:00:40,214 - INFO - Processed 9500000 reads so far
2011-05-20 06:00:40,367 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:62990086-83010086
2011-05-20 06:00:47,157 - INFO - Processed 9600000 reads so far
2011-05-20 06:00:54,684 - INFO - Processed 9700000 reads so far
2011-05-20 06:01:04,284 - INFO - Processed 9800000 reads so far
2011-05-20 06:01:13,808 - INFO - Processed 9900000 reads so far
2011-05-20 06:01:22,894 - INFO - Processed 10000000 reads so far
2011-05-20 06:01:40,836 - INFO - Processed 10100000 reads so far
2011-05-20 06:01:52,737 - INFO - Processed 10200000 reads so far
2011-05-20 06:02:04,456 - INFO - Processed 10300000 reads so far
2011-05-20 06:02:16,028 - INFO - Processed 10400000 reads so far
2011-05-20 06:02:27,422 - INFO - Processed 10500000 reads so far
2011-05-20 06:02:30,536 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:82990095-103010095
2011-05-20 06:02:39,990 - INFO - Processed 10600000 reads so far
2011-05-20 06:02:51,782 - INFO - Processed 10700000 reads so far
2011-05-20 06:03:02,860 - INFO - Processed 10800000 reads so far
2011-05-20 06:03:14,581 - INFO - Processed 10900000 reads so far
2011-05-20 06:03:26,494 - INFO - Processed 11000000 reads so far
2011-05-20 06:03:40,494 - INFO - Processed 11100000 reads so far
2011-05-20 06:03:52,027 - INFO - Processed 11200000 reads so far
2011-05-20 06:04:03,848 - INFO - Processed 11300000 reads so far
2011-05-20 06:04:16,392 - INFO - Processed 11400000 reads so far
2011-05-20 06:04:28,227 - INFO - Processed 11500000 reads so far
2011-05-20 06:04:29,016 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr11:102990113-123010113
2011-05-20 06:04:40,925 - INFO - Processed 11600000 reads so far
2011-05-20 06:04:53,749 - INFO - Processed 11700000 reads so far
2011-05-20 06:05:04,208 - INFO - Processed 11800000 reads so far
2011-05-20 06:05:15,239 - INFO - Processed 11900000 reads so far
2011-05-20 06:05:26,542 - INFO - Processed 12000000 reads so far
2011-05-20 06:05:37,861 - INFO - Processed 12100000 reads so far
2011-05-20 06:05:49,767 - INFO - Processed 12200000 reads so far
2011-05-20 06:06:02,514 - INFO - Processed 12300000 reads so far
2011-05-20 06:06:13,907 - INFO - Processed 12400000 reads so far
2011-05-20 06:06:19,527 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:2990006-23010006
2011-05-20 06:06:24,191 - INFO - Processed 12500000 reads so far
2011-05-20 06:06:33,712 - INFO - Processed 12600000 reads so far
2011-05-20 06:06:47,030 - INFO - Processed 12700000 reads so far
2011-05-20 06:06:58,544 - INFO - Processed 12800000 reads so far
2011-05-20 06:07:10,024 - INFO - Processed 12900000 reads so far
2011-05-20 06:07:21,715 - INFO - Processed 13000000 reads so far
2011-05-20 06:07:33,359 - INFO - Processed 13100000 reads so far
2011-05-20 06:07:44,845 - INFO - Processed 13200000 reads so far
2011-05-20 06:07:56,386 - INFO - Processed 13300000 reads so far
2011-05-20 06:08:07,823 - INFO - Processed 13400000 reads so far
2011-05-20 06:08:18,477 - INFO - Processed 13500000 reads so far
2011-05-20 06:08:27,948 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:22990082-43010082
2011-05-20 06:08:30,101 - INFO - Processed 13600000 reads so far
2011-05-20 06:08:43,384 - INFO - Processed 13700000 reads so far
2011-05-20 06:08:57,981 - INFO - Processed 13800000 reads so far
2011-05-20 06:09:09,772 - INFO - Processed 13900000 reads so far
2011-05-20 06:09:19,841 - INFO - Processed 14000000 reads so far
2011-05-20 06:09:30,731 - INFO - Processed 14100000 reads so far
2011-05-20 06:09:40,109 - INFO - Processed 14200000 reads so far
2011-05-20 06:09:48,121 - INFO - Processed 14300000 reads so far
2011-05-20 06:09:59,127 - INFO - Processed 14400000 reads so far
2011-05-20 06:10:08,653 - INFO - Processed 14500000 reads so far
2011-05-20 06:10:11,248 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:42990086-63010086
2011-05-20 06:10:17,707 - INFO - Processed 14600000 reads so far
2011-05-20 06:10:26,828 - INFO - Processed 14700000 reads so far
2011-05-20 06:10:41,360 - INFO - Processed 14800000 reads so far
2011-05-20 06:10:48,886 - INFO - Processed 14900000 reads so far
2011-05-20 06:11:04,731 - INFO - Processed 15000000 reads so far
2011-05-20 06:11:15,940 - INFO - Processed 15100000 reads so far
2011-05-20 06:11:31,048 - INFO - Processed 15200000 reads so far
2011-05-20 06:11:43,541 - INFO - Processed 15300000 reads so far
2011-05-20 06:11:55,853 - INFO - Processed 15400000 reads so far
2011-05-20 06:12:09,285 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:62990089-83010089
2011-05-20 06:12:10,091 - INFO - Processed 15500000 reads so far
2011-05-20 06:12:21,904 - INFO - Processed 15600000 reads so far
2011-05-20 06:12:40,683 - INFO - Processed 15700000 reads so far
2011-05-20 06:12:51,718 - INFO - Processed 15800000 reads so far
2011-05-20 06:13:05,382 - INFO - Processed 15900000 reads so far
2011-05-20 06:13:23,283 - INFO - Processed 16000000 reads so far
2011-05-20 06:13:38,396 - INFO - Processed 16100000 reads so far
2011-05-20 06:13:49,206 - INFO - Processed 16200000 reads so far
2011-05-20 06:14:00,091 - INFO - Processed 16300000 reads so far
2011-05-20 06:14:11,808 - INFO - Processed 16400000 reads so far
2011-05-20 06:14:22,334 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:82990090-103010090
2011-05-20 06:14:22,922 - INFO - Processed 16500000 reads so far
2011-05-20 06:14:34,720 - INFO - Processed 16600000 reads so far
2011-05-20 06:14:47,965 - INFO - Processed 16700000 reads so far
2011-05-20 06:14:59,260 - INFO - Processed 16800000 reads so far
2011-05-20 06:15:12,298 - INFO - Processed 16900000 reads so far
2011-05-20 06:15:22,978 - INFO - Processed 17000000 reads so far
2011-05-20 06:15:32,949 - INFO - Processed 17100000 reads so far
2011-05-20 06:15:41,347 - INFO - Processed 17200000 reads so far
2011-05-20 06:15:51,159 - INFO - Processed 17300000 reads so far
2011-05-20 06:16:02,416 - INFO - Processed 17400000 reads so far
2011-05-20 06:16:10,915 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr12:102990110-123010110
2011-05-20 06:16:11,527 - INFO - Processed 17500000 reads so far
2011-05-20 06:16:22,909 - INFO - Processed 17600000 reads so far
2011-05-20 06:16:34,035 - INFO - Processed 17700000 reads so far
2011-05-20 06:16:43,014 - INFO - Processed 17800000 reads so far
2011-05-20 06:16:52,628 - INFO - Processed 17900000 reads so far
2011-05-20 06:17:01,455 - INFO - Processed 18000000 reads so far
2011-05-20 06:17:10,876 - INFO - Processed 18100000 reads so far
2011-05-20 06:17:18,901 - INFO - Processed 18200000 reads so far
2011-05-20 06:17:28,341 - INFO - Processed 18300000 reads so far
2011-05-20 06:17:36,778 - INFO - Processed 18400000 reads so far
2011-05-20 06:17:48,065 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:2990053-23010053
2011-05-20 06:17:49,427 - INFO - Processed 18500000 reads so far
2011-05-20 06:17:58,722 - INFO - Processed 18600000 reads so far
2011-05-20 06:18:12,645 - INFO - Processed 18700000 reads so far
2011-05-20 06:18:24,247 - INFO - Processed 18800000 reads so far
2011-05-20 06:18:33,654 - INFO - Processed 18900000 reads so far
2011-05-20 06:18:42,078 - INFO - Processed 19000000 reads so far
2011-05-20 06:18:50,414 - INFO - Processed 19100000 reads so far
2011-05-20 06:19:02,450 - INFO - Processed 19200000 reads so far
2011-05-20 06:19:14,541 - INFO - Processed 19300000 reads so far
2011-05-20 06:19:23,302 - INFO - Processed 19400000 reads so far
2011-05-20 06:19:29,178 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:22990147-43010147
2011-05-20 06:19:32,993 - INFO - Processed 19500000 reads so far
2011-05-20 06:19:41,776 - INFO - Processed 19600000 reads so far
2011-05-20 06:19:51,916 - INFO - Processed 19700000 reads so far
2011-05-20 06:20:00,610 - INFO - Processed 19800000 reads so far
2011-05-20 06:20:13,062 - INFO - Processed 19900000 reads so far
2011-05-20 06:20:22,144 - INFO - Processed 20000000 reads so far
2011-05-20 06:20:34,207 - INFO - Processed 20100000 reads so far
2011-05-20 06:20:45,579 - INFO - Processed 20200000 reads so far
2011-05-20 06:20:55,536 - INFO - Processed 20300000 reads so far
2011-05-20 06:21:03,795 - INFO - Processed 20400000 reads so far
2011-05-20 06:21:14,520 - INFO - Processed 20500000 reads so far
2011-05-20 06:21:15,905 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:42990176-63010176
2011-05-20 06:21:25,414 - INFO - Processed 20600000 reads so far
2011-05-20 06:21:35,233 - INFO - Processed 20700000 reads so far
2011-05-20 06:21:47,297 - INFO - Processed 20800000 reads so far
2011-05-20 06:21:59,197 - INFO - Processed 20900000 reads so far
2011-05-20 06:22:09,130 - INFO - Processed 21000000 reads so far
2011-05-20 06:22:20,070 - INFO - Processed 21100000 reads so far
2011-05-20 06:22:30,189 - INFO - Processed 21200000 reads so far
2011-05-20 06:22:40,767 - INFO - Processed 21300000 reads so far
2011-05-20 06:22:52,987 - INFO - Processed 21400000 reads so far
2011-05-20 06:23:03,725 - INFO - Processed 21500000 reads so far
2011-05-20 06:23:10,207 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:62990179-83010179
2011-05-20 06:23:17,138 - INFO - Processed 21600000 reads so far
2011-05-20 06:23:29,067 - INFO - Processed 21700000 reads so far
2011-05-20 06:23:40,380 - INFO - Processed 21800000 reads so far
2011-05-20 06:23:50,933 - INFO - Processed 21900000 reads so far
2011-05-20 06:24:03,735 - INFO - Processed 22000000 reads so far
2011-05-20 06:24:15,156 - INFO - Processed 22100000 reads so far
2011-05-20 06:24:26,882 - INFO - Processed 22200000 reads so far
2011-05-20 06:24:41,712 - INFO - Processed 22300000 reads so far
2011-05-20 06:24:53,350 - INFO - Processed 22400000 reads so far
2011-05-20 06:25:05,044 - INFO - Processed 22500000 reads so far
2011-05-20 06:25:13,699 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:82990186-103010186
2011-05-20 06:25:19,175 - INFO - Processed 22600000 reads so far
2011-05-20 06:25:31,789 - INFO - Processed 22700000 reads so far
2011-05-20 06:25:44,447 - INFO - Processed 22800000 reads so far
2011-05-20 06:25:56,165 - INFO - Processed 22900000 reads so far
2011-05-20 06:26:08,659 - INFO - Processed 23000000 reads so far
2011-05-20 06:26:20,976 - INFO - Processed 23100000 reads so far
2011-05-20 06:26:32,101 - INFO - Processed 23200000 reads so far
2011-05-20 06:26:42,018 - INFO - Processed 23300000 reads so far
2011-05-20 06:26:52,756 - INFO - Processed 23400000 reads so far
2011-05-20 06:27:03,497 - INFO - Processed 23500000 reads so far
2011-05-20 06:27:06,100 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13:102990206-123010206
2011-05-20 06:27:13,277 - INFO - Processed 23600000 reads so far
2011-05-20 06:27:25,965 - INFO - Processed 23700000 reads so far
2011-05-20 06:27:38,452 - INFO - Processed 23800000 reads so far
2011-05-20 06:27:48,403 - INFO - Processed 23900000 reads so far
2011-05-20 06:27:59,677 - INFO - Processed 24000000 reads so far
2011-05-20 06:28:11,306 - INFO - Processed 24100000 reads so far
2011-05-20 06:28:21,309 - INFO - Processed 24200000 reads so far
2011-05-20 06:28:29,622 - INFO - Processed 24300000 reads so far
2011-05-20 06:28:40,357 - INFO - Processed 24400000 reads so far
2011-05-20 06:28:40,488 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr13_random:0-20010000
2011-05-20 06:28:41,688 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:2990027-23010027
2011-05-20 06:28:52,736 - INFO - Processed 24500000 reads so far
2011-05-20 06:29:04,430 - INFO - Processed 24600000 reads so far
2011-05-20 06:29:16,194 - INFO - Processed 24700000 reads so far
2011-05-20 06:29:27,934 - INFO - Processed 24800000 reads so far
2011-05-20 06:29:39,580 - INFO - Processed 24900000 reads so far
2011-05-20 06:29:51,863 - INFO - Processed 25000000 reads so far
2011-05-20 06:30:03,233 - INFO - Processed 25100000 reads so far
2011-05-20 06:30:14,630 - INFO - Processed 25200000 reads so far
2011-05-20 06:30:25,851 - INFO - Processed 25300000 reads so far
2011-05-20 06:30:37,429 - INFO - Processed 25400000 reads so far
2011-05-20 06:30:40,551 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:22990030-43010030
2011-05-20 06:30:50,152 - INFO - Processed 25500000 reads so far
2011-05-20 06:31:01,511 - INFO - Processed 25600000 reads so far
2011-05-20 06:31:13,701 - INFO - Processed 25700000 reads so far
2011-05-20 06:31:27,638 - INFO - Processed 25800000 reads so far
2011-05-20 06:31:40,754 - INFO - Processed 25900000 reads so far
2011-05-20 06:31:56,277 - INFO - Processed 26000000 reads so far
2011-05-20 06:32:10,104 - INFO - Processed 26100000 reads so far
2011-05-20 06:32:23,533 - INFO - Processed 26200000 reads so far
2011-05-20 06:32:34,932 - INFO - Processed 26300000 reads so far
2011-05-20 06:32:46,527 - INFO - Processed 26400000 reads so far
2011-05-20 06:32:51,092 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:42990153-63010153
2011-05-20 06:32:57,577 - INFO - Processed 26500000 reads so far
2011-05-20 06:33:08,927 - INFO - Processed 26600000 reads so far
2011-05-20 06:33:20,676 - INFO - Processed 26700000 reads so far
2011-05-20 06:33:32,257 - INFO - Processed 26800000 reads so far
2011-05-20 06:33:44,106 - INFO - Processed 26900000 reads so far
2011-05-20 06:33:56,156 - INFO - Processed 27000000 reads so far
2011-05-20 06:34:07,867 - INFO - Processed 27100000 reads so far
2011-05-20 06:34:19,506 - INFO - Processed 27200000 reads so far
2011-05-20 06:34:30,874 - INFO - Processed 27300000 reads so far
2011-05-20 06:34:43,310 - INFO - Processed 27400000 reads so far
2011-05-20 06:34:50,678 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:62990161-83010161
2011-05-20 06:34:54,699 - INFO - Processed 27500000 reads so far
2011-05-20 06:35:06,105 - INFO - Processed 27600000 reads so far
2011-05-20 06:35:18,054 - INFO - Processed 27700000 reads so far
2011-05-20 06:35:29,472 - INFO - Processed 27800000 reads so far
2011-05-20 06:35:41,115 - INFO - Processed 27900000 reads so far
2011-05-20 06:35:56,282 - INFO - Processed 28000000 reads so far
2011-05-20 06:36:07,687 - INFO - Processed 28100000 reads so far
2011-05-20 06:36:19,624 - INFO - Processed 28200000 reads so far
2011-05-20 06:36:31,094 - INFO - Processed 28300000 reads so far
2011-05-20 06:36:42,456 - INFO - Processed 28400000 reads so far
2011-05-20 06:36:53,954 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:82990167-103010167
2011-05-20 06:36:54,371 - INFO - Processed 28500000 reads so far
2011-05-20 06:37:06,505 - INFO - Processed 28600000 reads so far
2011-05-20 06:37:17,711 - INFO - Processed 28700000 reads so far
2011-05-20 06:37:33,628 - INFO - Processed 28800000 reads so far
2011-05-20 06:37:43,682 - INFO - Processed 28900000 reads so far
2011-05-20 06:37:52,707 - INFO - Processed 29000000 reads so far
2011-05-20 06:38:01,674 - INFO - Processed 29100000 reads so far
2011-05-20 06:38:13,016 - INFO - Processed 29200000 reads so far
2011-05-20 06:38:22,953 - INFO - Processed 29300000 reads so far
2011-05-20 06:38:32,540 - INFO - Processed 29400000 reads so far
2011-05-20 06:38:33,312 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:102990183-123010183
2011-05-20 06:38:42,888 - INFO - Processed 29500000 reads so far
2011-05-20 06:38:51,595 - INFO - Processed 29600000 reads so far
2011-05-20 06:39:02,019 - INFO - Processed 29700000 reads so far
2011-05-20 06:39:11,292 - INFO - Processed 29800000 reads so far
2011-05-20 06:39:20,143 - INFO - Processed 29900000 reads so far
2011-05-20 06:39:28,541 - INFO - Processed 30000000 reads so far
2011-05-20 06:39:37,111 - INFO - Processed 30100000 reads so far
2011-05-20 06:39:46,290 - INFO - Processed 30200000 reads so far
2011-05-20 06:39:55,468 - INFO - Processed 30300000 reads so far
2011-05-20 06:40:01,868 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr14:122990184-143010184
2011-05-20 06:40:04,514 - INFO - Processed 30400000 reads so far
2011-05-20 06:40:13,878 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:2990004-23010004
2011-05-20 06:40:16,123 - INFO - Processed 30500000 reads so far
2011-05-20 06:40:26,037 - INFO - Processed 30600000 reads so far
2011-05-20 06:40:35,847 - INFO - Processed 30700000 reads so far
2011-05-20 06:40:45,268 - INFO - Processed 30800000 reads so far
2011-05-20 06:40:57,455 - INFO - Processed 30900000 reads so far
2011-05-20 06:41:07,194 - INFO - Processed 31000000 reads so far
2011-05-20 06:41:17,034 - INFO - Processed 31100000 reads so far
2011-05-20 06:41:28,037 - INFO - Processed 31200000 reads so far
2011-05-20 06:41:41,295 - INFO - Processed 31300000 reads so far
2011-05-20 06:41:53,244 - INFO - Processed 31400000 reads so far
2011-05-20 06:41:56,688 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:22990017-43010017
2011-05-20 06:42:03,701 - INFO - Processed 31500000 reads so far
2011-05-20 06:42:15,295 - INFO - Processed 31600000 reads so far
2011-05-20 06:42:26,035 - INFO - Processed 31700000 reads so far
2011-05-20 06:42:34,935 - INFO - Processed 31800000 reads so far
2011-05-20 06:42:46,924 - INFO - Processed 31900000 reads so far
2011-05-20 06:42:58,361 - INFO - Processed 32000000 reads so far
2011-05-20 06:43:10,380 - INFO - Processed 32100000 reads so far
2011-05-20 06:43:23,107 - INFO - Processed 32200000 reads so far
2011-05-20 06:43:34,936 - INFO - Processed 32300000 reads so far
2011-05-20 06:43:46,612 - INFO - Processed 32400000 reads so far
2011-05-20 06:43:52,126 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:42990019-63010019
2011-05-20 06:43:59,552 - INFO - Processed 32500000 reads so far
2011-05-20 06:44:10,504 - INFO - Processed 32600000 reads so far
2011-05-20 06:44:20,888 - INFO - Processed 32700000 reads so far
2011-05-20 06:44:32,393 - INFO - Processed 32800000 reads so far
2011-05-20 06:44:45,367 - INFO - Processed 32900000 reads so far
2011-05-20 06:44:55,553 - INFO - Processed 33000000 reads so far
2011-05-20 06:45:04,428 - INFO - Processed 33100000 reads so far
2011-05-20 06:45:14,927 - INFO - Processed 33200000 reads so far
2011-05-20 06:45:25,293 - INFO - Processed 33300000 reads so far
2011-05-20 06:45:35,944 - INFO - Processed 33400000 reads so far
2011-05-20 06:45:37,902 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:62990095-83010095
2011-05-20 06:45:47,151 - INFO - Processed 33500000 reads so far
2011-05-20 06:45:57,883 - INFO - Processed 33600000 reads so far
2011-05-20 06:46:10,407 - INFO - Processed 33700000 reads so far
2011-05-20 06:46:20,174 - INFO - Processed 33800000 reads so far
2011-05-20 06:46:31,953 - INFO - Processed 33900000 reads so far
2011-05-20 06:46:45,164 - INFO - Processed 34000000 reads so far
2011-05-20 06:46:55,658 - INFO - Processed 34100000 reads so far
2011-05-20 06:47:05,478 - INFO - Processed 34200000 reads so far
2011-05-20 06:47:15,638 - INFO - Processed 34300000 reads so far
2011-05-20 06:47:26,336 - INFO - Processed 34400000 reads so far
2011-05-20 06:47:34,689 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:82990133-103010133
2011-05-20 06:47:38,781 - INFO - Processed 34500000 reads so far
2011-05-20 06:47:51,189 - INFO - Processed 34600000 reads so far
2011-05-20 06:48:00,947 - INFO - Processed 34700000 reads so far
2011-05-20 06:48:11,724 - INFO - Processed 34800000 reads so far
2011-05-20 06:48:22,154 - INFO - Processed 34900000 reads so far
2011-05-20 06:48:34,852 - INFO - Processed 35000000 reads so far
2011-05-20 06:48:44,315 - INFO - Processed 35100000 reads so far
2011-05-20 06:48:54,309 - INFO - Processed 35200000 reads so far
2011-05-20 06:49:05,508 - INFO - Processed 35300000 reads so far
2011-05-20 06:49:16,344 - INFO - Processed 35400000 reads so far
2011-05-20 06:49:23,886 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr15:102990136-123010136
2011-05-20 06:49:26,738 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16:2990086-23010086
2011-05-20 06:49:27,924 - INFO - Processed 35500000 reads so far
2011-05-20 06:49:40,474 - INFO - Processed 35600000 reads so far
2011-05-20 06:49:50,074 - INFO - Processed 35700000 reads so far
2011-05-20 06:49:58,608 - INFO - Processed 35800000 reads so far
2011-05-20 06:50:08,316 - INFO - Processed 35900000 reads so far
2011-05-20 06:50:20,551 - INFO - Processed 36000000 reads so far
2011-05-20 06:50:31,415 - INFO - Processed 36100000 reads so far
2011-05-20 06:50:42,707 - INFO - Processed 36200000 reads so far
2011-05-20 06:50:54,562 - INFO - Processed 36300000 reads so far
2011-05-20 06:51:04,114 - INFO - Processed 36400000 reads so far
2011-05-20 06:51:14,869 - INFO - Processed 36500000 reads so far
2011-05-20 06:51:20,471 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16:22990142-43010142
2011-05-20 06:51:24,080 - INFO - Processed 36600000 reads so far
2011-05-20 06:51:35,609 - INFO - Processed 36700000 reads so far
2011-05-20 06:51:45,985 - INFO - Processed 36800000 reads so far
2011-05-20 06:51:55,913 - INFO - Processed 36900000 reads so far
2011-05-20 06:52:05,077 - INFO - Processed 37000000 reads so far
2011-05-20 06:52:15,705 - INFO - Processed 37100000 reads so far
2011-05-20 06:52:24,681 - INFO - Processed 37200000 reads so far
2011-05-20 06:52:35,227 - INFO - Processed 37300000 reads so far
2011-05-20 06:52:47,393 - INFO - Processed 37400000 reads so far
2011-05-20 06:52:56,771 - INFO - Processed 37500000 reads so far
2011-05-20 06:53:06,082 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16:42990178-63010178
2011-05-20 06:53:08,524 - INFO - Processed 37600000 reads so far
2011-05-20 06:53:18,845 - INFO - Processed 37700000 reads so far
2011-05-20 06:53:29,751 - INFO - Processed 37800000 reads so far
2011-05-20 06:53:41,563 - INFO - Processed 37900000 reads so far
2011-05-20 06:53:52,231 - INFO - Processed 38000000 reads so far
2011-05-20 06:54:05,588 - INFO - Processed 38100000 reads so far
2011-05-20 06:54:15,197 - INFO - Processed 38200000 reads so far
2011-05-20 06:54:24,140 - INFO - Processed 38300000 reads so far
2011-05-20 06:54:34,112 - INFO - Processed 38400000 reads so far
2011-05-20 06:54:44,746 - INFO - Processed 38500000 reads so far
2011-05-20 06:54:52,439 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16:62990214-83010214
2011-05-20 06:54:56,840 - INFO - Processed 38600000 reads so far
2011-05-20 06:55:05,739 - INFO - Processed 38700000 reads so far
2011-05-20 06:55:16,745 - INFO - Processed 38800000 reads so far
2011-05-20 06:55:27,127 - INFO - Processed 38900000 reads so far
2011-05-20 06:55:37,686 - INFO - Processed 39000000 reads so far
2011-05-20 06:55:48,338 - INFO - Processed 39100000 reads so far
2011-05-20 06:56:01,248 - INFO - Processed 39200000 reads so far
2011-05-20 06:56:11,498 - INFO - Processed 39300000 reads so far
2011-05-20 06:56:22,485 - INFO - Processed 39400000 reads so far
2011-05-20 06:56:30,120 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16:82990282-103010282
2011-05-20 06:56:31,352 - INFO - Processed 39500000 reads so far
2011-05-20 06:56:41,160 - INFO - Processed 39600000 reads so far
2011-05-20 06:56:50,309 - INFO - Processed 39700000 reads so far
2011-05-20 06:56:58,820 - INFO - Processed 39800000 reads so far
2011-05-20 06:57:08,836 - INFO - Processed 39900000 reads so far
2011-05-20 06:57:19,286 - INFO - Processed 40000000 reads so far
2011-05-20 06:57:28,730 - INFO - Processed 40100000 reads so far
2011-05-20 06:57:38,604 - INFO - Processed 40200000 reads so far
2011-05-20 06:57:45,319 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr16_random:0-20010119
2011-05-20 06:57:45,357 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17:2989976-23009976
2011-05-20 06:57:48,439 - INFO - Processed 40300000 reads so far
2011-05-20 06:57:56,932 - INFO - Processed 40400000 reads so far
2011-05-20 06:58:07,980 - INFO - Processed 40500000 reads so far
2011-05-20 06:58:19,950 - INFO - Processed 40600000 reads so far
2011-05-20 06:58:28,697 - INFO - Processed 40700000 reads so far
2011-05-20 06:58:37,571 - INFO - Processed 40800000 reads so far
2011-05-20 06:58:45,927 - INFO - Processed 40900000 reads so far
2011-05-20 06:58:54,077 - INFO - Processed 41000000 reads so far
2011-05-20 06:59:03,467 - INFO - Processed 41100000 reads so far
2011-05-20 06:59:11,655 - INFO - Processed 41200000 reads so far
2011-05-20 06:59:19,049 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17:22990001-43010001
2011-05-20 06:59:22,319 - INFO - Processed 41300000 reads so far
2011-05-20 06:59:34,017 - INFO - Processed 41400000 reads so far
2011-05-20 06:59:42,681 - INFO - Processed 41500000 reads so far
2011-05-20 06:59:53,329 - INFO - Processed 41600000 reads so far
2011-05-20 07:00:02,388 - INFO - Processed 41700000 reads so far
2011-05-20 07:00:12,261 - INFO - Processed 41800000 reads so far
2011-05-20 07:00:21,434 - INFO - Processed 41900000 reads so far
2011-05-20 07:00:29,640 - INFO - Processed 42000000 reads so far
2011-05-20 07:00:39,330 - INFO - Processed 42100000 reads so far
2011-05-20 07:00:48,655 - INFO - Processed 42200000 reads so far
2011-05-20 07:00:56,955 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17:42990008-63010008
2011-05-20 07:00:58,496 - INFO - Processed 42300000 reads so far
2011-05-20 07:01:08,339 - INFO - Processed 42400000 reads so far
2011-05-20 07:01:17,749 - INFO - Processed 42500000 reads so far
2011-05-20 07:01:29,310 - INFO - Processed 42600000 reads so far
2011-05-20 07:01:39,225 - INFO - Processed 42700000 reads so far
2011-05-20 07:01:49,932 - INFO - Processed 42800000 reads so far
2011-05-20 07:02:01,931 - INFO - Processed 42900000 reads so far
2011-05-20 07:02:12,716 - INFO - Processed 43000000 reads so far
2011-05-20 07:02:23,892 - INFO - Processed 43100000 reads so far
2011-05-20 07:02:33,527 - INFO - Processed 43200000 reads so far
2011-05-20 07:02:39,784 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17:62990022-83010022
2011-05-20 07:02:45,104 - INFO - Processed 43300000 reads so far
2011-05-20 07:02:55,021 - INFO - Processed 43400000 reads so far
2011-05-20 07:03:07,949 - INFO - Processed 43500000 reads so far
2011-05-20 07:03:21,030 - INFO - Processed 43600000 reads so far
2011-05-20 07:03:31,631 - INFO - Processed 43700000 reads so far
2011-05-20 07:03:43,129 - INFO - Processed 43800000 reads so far
2011-05-20 07:03:53,902 - INFO - Processed 43900000 reads so far
2011-05-20 07:04:04,687 - INFO - Processed 44000000 reads so far
2011-05-20 07:04:13,401 - INFO - Processed 44100000 reads so far
2011-05-20 07:04:25,243 - INFO - Processed 44200000 reads so far
2011-05-20 07:04:34,176 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17:82990067-103010067
2011-05-20 07:04:37,709 - INFO - Processed 44300000 reads so far
2011-05-20 07:04:49,015 - INFO - Processed 44400000 reads so far
2011-05-20 07:05:00,546 - INFO - Processed 44500000 reads so far
2011-05-20 07:05:09,933 - INFO - Processed 44600000 reads so far
2011-05-20 07:05:21,381 - INFO - Processed 44700000 reads so far
2011-05-20 07:05:32,718 - INFO - Processed 44800000 reads so far
2011-05-20 07:05:40,807 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr17_random:0-20010033
2011-05-20 07:05:42,497 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr18:2989997-23009997
2011-05-20 07:05:43,641 - INFO - Processed 44900000 reads so far
2011-05-20 07:05:54,680 - INFO - Processed 45000000 reads so far
2011-05-20 07:06:05,475 - INFO - Processed 45100000 reads so far
2011-05-20 07:06:16,343 - INFO - Processed 45200000 reads so far
2011-05-20 07:06:28,066 - INFO - Processed 45300000 reads so far
2011-05-20 07:06:39,282 - INFO - Processed 45400000 reads so far
2011-05-20 07:06:51,808 - INFO - Processed 45500000 reads so far
2011-05-20 07:07:03,876 - INFO - Processed 45600000 reads so far
2011-05-20 07:07:14,945 - INFO - Processed 45700000 reads so far
2011-05-20 07:07:25,944 - INFO - Processed 45800000 reads so far
2011-05-20 07:07:36,546 - INFO - Processed 45900000 reads so far
2011-05-20 07:07:41,333 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr18:22990007-43010007
2011-05-20 07:07:46,748 - INFO - Processed 46000000 reads so far
2011-05-20 07:07:56,415 - INFO - Processed 46100000 reads so far
2011-05-20 07:08:06,379 - INFO - Processed 46200000 reads so far
2011-05-20 07:08:15,029 - INFO - Processed 46300000 reads so far
2011-05-20 07:08:25,966 - INFO - Processed 46400000 reads so far
2011-05-20 07:08:35,036 - INFO - Processed 46500000 reads so far
2011-05-20 07:08:44,574 - INFO - Processed 46600000 reads so far
2011-05-20 07:08:56,351 - INFO - Processed 46700000 reads so far
2011-05-20 07:09:07,625 - INFO - Processed 46800000 reads so far
2011-05-20 07:09:19,210 - INFO - Processed 46900000 reads so far
2011-05-20 07:09:26,605 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr18:42990046-63010046
2011-05-20 07:09:30,856 - INFO - Processed 47000000 reads so far
2011-05-20 07:09:43,307 - INFO - Processed 47100000 reads so far
2011-05-20 07:09:55,443 - INFO - Processed 47200000 reads so far
2011-05-20 07:10:16,481 - INFO - Processed 47300000 reads so far
2011-05-20 07:10:30,893 - INFO - Processed 47400000 reads so far
2011-05-20 07:10:45,021 - INFO - Processed 47500000 reads so far
2011-05-20 07:11:11,420 - INFO - Processed 47600000 reads so far
2011-05-20 07:11:22,945 - INFO - Processed 47700000 reads so far
2011-05-20 07:11:35,043 - INFO - Processed 47800000 reads so far
2011-05-20 07:11:50,639 - INFO - Processed 47900000 reads so far
2011-05-20 07:11:56,730 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr18:62990062-83010062
2011-05-20 07:12:00,401 - INFO - Processed 48000000 reads so far
2011-05-20 07:12:13,266 - INFO - Processed 48100000 reads so far
2011-05-20 07:12:23,446 - INFO - Processed 48200000 reads so far
2011-05-20 07:12:32,814 - INFO - Processed 48300000 reads so far
2011-05-20 07:12:50,648 - INFO - Processed 48400000 reads so far
2011-05-20 07:12:59,707 - INFO - Processed 48500000 reads so far
2011-05-20 07:13:07,426 - INFO - Processed 48600000 reads so far
2011-05-20 07:13:19,771 - INFO - Processed 48700000 reads so far
2011-05-20 07:13:27,829 - INFO - Processed 48800000 reads so far
2011-05-20 07:13:37,408 - INFO - Processed 48900000 reads so far
2011-05-20 07:13:48,043 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr18:82990063-103010063
2011-05-20 07:13:49,168 - INFO - Processed 49000000 reads so far
2011-05-20 07:13:57,959 - INFO - Processed 49100000 reads so far
2011-05-20 07:14:06,683 - INFO - Processed 49200000 reads so far
2011-05-20 07:14:15,141 - INFO - Processed 49300000 reads so far
2011-05-20 07:14:20,780 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr19:2990017-23010017
2011-05-20 07:14:23,275 - INFO - Processed 49400000 reads so far
2011-05-20 07:14:33,827 - INFO - Processed 49500000 reads so far
2011-05-20 07:14:43,343 - INFO - Processed 49600000 reads so far
2011-05-20 07:14:51,387 - INFO - Processed 49700000 reads so far
2011-05-20 07:14:59,695 - INFO - Processed 49800000 reads so far
2011-05-20 07:15:08,144 - INFO - Processed 49900000 reads so far
2011-05-20 07:15:17,178 - INFO - Processed 50000000 reads so far
2011-05-20 07:15:24,524 - INFO - Processed 50100000 reads so far
2011-05-20 07:15:34,891 - INFO - Processed 50200000 reads so far
2011-05-20 07:15:42,434 - INFO - Processed 50300000 reads so far
2011-05-20 07:15:47,193 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr19:22990023-43010023
2011-05-20 07:15:51,346 - INFO - Processed 50400000 reads so far
2011-05-20 07:15:59,848 - INFO - Processed 50500000 reads so far
2011-05-20 07:16:11,193 - INFO - Processed 50600000 reads so far
2011-05-20 07:16:21,034 - INFO - Processed 50700000 reads so far
2011-05-20 07:16:33,420 - INFO - Processed 50800000 reads so far
2011-05-20 07:16:42,260 - INFO - Processed 50900000 reads so far
2011-05-20 07:16:53,219 - INFO - Processed 51000000 reads so far
2011-05-20 07:17:03,387 - INFO - Processed 51100000 reads so far
2011-05-20 07:17:14,286 - INFO - Processed 51200000 reads so far
2011-05-20 07:17:24,062 - INFO - Processed 51300000 reads so far
2011-05-20 07:17:29,091 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr19:42990033-63010033
2011-05-20 07:17:33,295 - INFO - Processed 51400000 reads so far
2011-05-20 07:17:41,557 - INFO - Processed 51500000 reads so far
2011-05-20 07:17:49,145 - INFO - Processed 51600000 reads so far
2011-05-20 07:17:58,202 - INFO - Processed 51700000 reads so far
2011-05-20 07:18:07,054 - INFO - Processed 51800000 reads so far
2011-05-20 07:18:16,836 - INFO - Processed 51900000 reads so far
2011-05-20 07:18:25,119 - INFO - Processed 52000000 reads so far
2011-05-20 07:18:34,118 - INFO - Processed 52100000 reads so far
2011-05-20 07:18:45,048 - INFO - Processed 52200000 reads so far
2011-05-20 07:18:53,479 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:2989995-23009995
2011-05-20 07:18:53,941 - INFO - Processed 52300000 reads so far
2011-05-20 07:19:06,766 - INFO - Processed 52400000 reads so far
2011-05-20 07:19:19,822 - INFO - Processed 52500000 reads so far
2011-05-20 07:19:31,000 - INFO - Processed 52600000 reads so far
2011-05-20 07:19:44,615 - INFO - Processed 52700000 reads so far
2011-05-20 07:19:55,678 - INFO - Processed 52800000 reads so far
2011-05-20 07:20:07,407 - INFO - Processed 52900000 reads so far
2011-05-20 07:20:19,339 - INFO - Processed 53000000 reads so far
2011-05-20 07:20:30,459 - INFO - Processed 53100000 reads so far
2011-05-20 07:20:39,876 - INFO - Processed 53200000 reads so far
2011-05-20 07:20:51,586 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:22990061-43010061
2011-05-20 07:20:53,687 - INFO - Processed 53300000 reads so far
2011-05-20 07:21:03,156 - INFO - Processed 53400000 reads so far
2011-05-20 07:21:11,548 - INFO - Processed 53500000 reads so far
2011-05-20 07:21:20,718 - INFO - Processed 53600000 reads so far
2011-05-20 07:21:29,585 - INFO - Processed 53700000 reads so far
2011-05-20 07:21:38,671 - INFO - Processed 53800000 reads so far
2011-05-20 07:21:50,796 - INFO - Processed 53900000 reads so far
2011-05-20 07:22:04,323 - INFO - Processed 54000000 reads so far
2011-05-20 07:22:14,818 - INFO - Processed 54100000 reads so far
2011-05-20 07:22:25,932 - INFO - Processed 54200000 reads so far
2011-05-20 07:22:34,129 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:42990085-63010085
2011-05-20 07:22:35,534 - INFO - Processed 54300000 reads so far
2011-05-20 07:22:46,173 - INFO - Processed 54400000 reads so far
2011-05-20 07:22:55,159 - INFO - Processed 54500000 reads so far
2011-05-20 07:23:04,092 - INFO - Processed 54600000 reads so far
2011-05-20 07:23:14,508 - INFO - Processed 54700000 reads so far
2011-05-20 07:23:27,327 - INFO - Processed 54800000 reads so far
2011-05-20 07:23:36,538 - INFO - Processed 54900000 reads so far
2011-05-20 07:23:45,125 - INFO - Processed 55000000 reads so far
2011-05-20 07:23:54,525 - INFO - Processed 55100000 reads so far
2011-05-20 07:24:03,529 - INFO - Processed 55200000 reads so far
2011-05-20 07:24:11,195 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:62990095-83010095
2011-05-20 07:24:12,392 - INFO - Processed 55300000 reads so far
2011-05-20 07:24:22,267 - INFO - Processed 55400000 reads so far
2011-05-20 07:24:31,636 - INFO - Processed 55500000 reads so far
2011-05-20 07:24:40,628 - INFO - Processed 55600000 reads so far
2011-05-20 07:24:50,849 - INFO - Processed 55700000 reads so far
2011-05-20 07:25:01,476 - INFO - Processed 55800000 reads so far
2011-05-20 07:25:11,717 - INFO - Processed 55900000 reads so far
2011-05-20 07:25:21,046 - INFO - Processed 56000000 reads so far
2011-05-20 07:25:30,043 - INFO - Processed 56100000 reads so far
2011-05-20 07:25:40,883 - INFO - Processed 56200000 reads so far
2011-05-20 07:25:49,103 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:82990109-103010109
2011-05-20 07:25:49,552 - INFO - Processed 56300000 reads so far
2011-05-20 07:25:57,933 - INFO - Processed 56400000 reads so far
2011-05-20 07:26:05,404 - INFO - Processed 56500000 reads so far
2011-05-20 07:26:16,109 - INFO - Processed 56600000 reads so far
2011-05-20 07:26:25,471 - INFO - Processed 56700000 reads so far
2011-05-20 07:26:34,075 - INFO - Processed 56800000 reads so far
2011-05-20 07:26:42,308 - INFO - Processed 56900000 reads so far
2011-05-20 07:26:53,626 - INFO - Processed 57000000 reads so far
2011-05-20 07:27:02,287 - INFO - Processed 57100000 reads so far
2011-05-20 07:27:11,830 - INFO - Processed 57200000 reads so far
2011-05-20 07:27:20,581 - INFO - Processed 57300000 reads so far
2011-05-20 07:27:23,477 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:102990174-123010174
2011-05-20 07:27:29,633 - INFO - Processed 57400000 reads so far
2011-05-20 07:27:37,991 - INFO - Processed 57500000 reads so far
2011-05-20 07:27:47,444 - INFO - Processed 57600000 reads so far
2011-05-20 07:27:56,330 - INFO - Processed 57700000 reads so far
2011-05-20 07:28:08,376 - INFO - Processed 57800000 reads so far
2011-05-20 07:28:16,966 - INFO - Processed 57900000 reads so far
2011-05-20 07:28:25,999 - INFO - Processed 58000000 reads so far
2011-05-20 07:28:34,567 - INFO - Processed 58100000 reads so far
2011-05-20 07:28:43,971 - INFO - Processed 58200000 reads so far
2011-05-20 07:28:53,901 - INFO - Processed 58300000 reads so far
2011-05-20 07:28:55,845 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:122990257-143010257
2011-05-20 07:29:04,092 - INFO - Processed 58400000 reads so far
2011-05-20 07:29:12,782 - INFO - Processed 58500000 reads so far
2011-05-20 07:29:21,379 - INFO - Processed 58600000 reads so far
2011-05-20 07:29:30,051 - INFO - Processed 58700000 reads so far
2011-05-20 07:29:38,225 - INFO - Processed 58800000 reads so far
2011-05-20 07:29:49,487 - INFO - Processed 58900000 reads so far
2011-05-20 07:29:58,255 - INFO - Processed 59000000 reads so far
2011-05-20 07:30:06,212 - INFO - Processed 59100000 reads so far
2011-05-20 07:30:16,297 - INFO - Processed 59200000 reads so far
2011-05-20 07:30:26,025 - INFO - Processed 59300000 reads so far
2011-05-20 07:30:29,232 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:142990312-163010312
2011-05-20 07:30:34,602 - INFO - Processed 59400000 reads so far
2011-05-20 07:30:44,298 - INFO - Processed 59500000 reads so far
2011-05-20 07:30:54,390 - INFO - Processed 59600000 reads so far
2011-05-20 07:31:03,783 - INFO - Processed 59700000 reads so far
2011-05-20 07:31:12,579 - INFO - Processed 59800000 reads so far
2011-05-20 07:31:27,613 - INFO - Processed 59900000 reads so far
2011-05-20 07:31:39,620 - INFO - Processed 60000000 reads so far
2011-05-20 07:31:49,046 - INFO - Processed 60100000 reads so far
2011-05-20 07:31:57,524 - INFO - Processed 60200000 reads so far
2011-05-20 07:32:08,213 - INFO - Processed 60300000 reads so far
2011-05-20 07:32:08,729 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:162990338-183010338
2011-05-20 07:32:17,357 - INFO - Processed 60400000 reads so far
2011-05-20 07:32:27,997 - INFO - Processed 60500000 reads so far
2011-05-20 07:32:36,972 - INFO - Processed 60600000 reads so far
2011-05-20 07:32:44,931 - INFO - Processed 60700000 reads so far
2011-05-20 07:32:53,275 - INFO - Processed 60800000 reads so far
2011-05-20 07:33:02,000 - INFO - Processed 60900000 reads so far
2011-05-20 07:33:10,546 - INFO - Processed 61000000 reads so far
2011-05-20 07:33:18,984 - INFO - Processed 61100000 reads so far
2011-05-20 07:33:27,684 - INFO - Processed 61200000 reads so far
2011-05-20 07:33:37,236 - INFO - Processed 61300000 reads so far
2011-05-20 07:33:40,612 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1:182990344-203010344
2011-05-20 07:33:46,029 - INFO - Processed 61400000 reads so far
2011-05-20 07:33:54,653 - INFO - Processed 61500000 reads so far
2011-05-20 07:34:02,510 - INFO - Processed 61600000 reads so far
2011-05-20 07:34:13,560 - INFO - Processed 61700000 reads so far
2011-05-20 07:34:22,506 - INFO - Processed 61800000 reads so far
2011-05-20 07:34:32,747 - INFO - Processed 61900000 reads so far
2011-05-20 07:34:40,602 - INFO - Processed 62000000 reads so far
2011-05-20 07:34:47,325 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr1_random:0-20010000
2011-05-20 07:34:50,253 - INFO - Processed 62100000 reads so far
2011-05-20 07:34:58,894 - INFO - Processed 62200000 reads so far
2011-05-20 07:34:59,730 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:2990031-23010031
2011-05-20 07:35:14,373 - INFO - Processed 62300000 reads so far
2011-05-20 07:35:29,263 - INFO - Processed 62400000 reads so far
2011-05-20 07:35:39,094 - INFO - Processed 62500000 reads so far
2011-05-20 07:35:51,925 - INFO - Processed 62600000 reads so far
2011-05-20 07:36:02,355 - INFO - Processed 62700000 reads so far
2011-05-20 07:36:10,996 - INFO - Processed 62800000 reads so far
2011-05-20 07:36:20,485 - INFO - Processed 62900000 reads so far
2011-05-20 07:36:28,346 - INFO - Processed 63000000 reads so far
2011-05-20 07:36:36,823 - INFO - Processed 63100000 reads so far
2011-05-20 07:36:45,176 - INFO - Processed 63200000 reads so far
2011-05-20 07:36:48,981 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:22990037-43010037
2011-05-20 07:36:55,635 - INFO - Processed 63300000 reads so far
2011-05-20 07:37:05,854 - INFO - Processed 63400000 reads so far
2011-05-20 07:37:15,406 - INFO - Processed 63500000 reads so far
2011-05-20 07:37:26,499 - INFO - Processed 63600000 reads so far
2011-05-20 07:37:36,276 - INFO - Processed 63700000 reads so far
2011-05-20 07:37:46,365 - INFO - Processed 63800000 reads so far
2011-05-20 07:37:57,529 - INFO - Processed 63900000 reads so far
2011-05-20 07:38:08,781 - INFO - Processed 64000000 reads so far
2011-05-20 07:38:20,053 - INFO - Processed 64100000 reads so far
2011-05-20 07:38:33,277 - INFO - Processed 64200000 reads so far
2011-05-20 07:38:35,977 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:42990072-63010072
2011-05-20 07:38:47,070 - INFO - Processed 64300000 reads so far
2011-05-20 07:38:58,417 - INFO - Processed 64400000 reads so far
2011-05-20 07:39:12,982 - INFO - Processed 64500000 reads so far
2011-05-20 07:39:25,494 - INFO - Processed 64600000 reads so far
2011-05-20 07:39:36,743 - INFO - Processed 64700000 reads so far
2011-05-20 07:39:45,692 - INFO - Processed 64800000 reads so far
2011-05-20 07:39:58,831 - INFO - Processed 64900000 reads so far
2011-05-20 07:40:11,414 - INFO - Processed 65000000 reads so far
2011-05-20 07:40:22,509 - INFO - Processed 65100000 reads so far
2011-05-20 07:40:33,700 - INFO - Processed 65200000 reads so far
2011-05-20 07:40:34,795 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:62990075-83010075
2011-05-20 07:40:42,641 - INFO - Processed 65300000 reads so far
2011-05-20 07:40:53,320 - INFO - Processed 65400000 reads so far
2011-05-20 07:41:05,220 - INFO - Processed 65500000 reads so far
2011-05-20 07:41:14,424 - INFO - Processed 65600000 reads so far
2011-05-20 07:41:23,354 - INFO - Processed 65700000 reads so far
2011-05-20 07:41:32,475 - INFO - Processed 65800000 reads so far
2011-05-20 07:41:41,249 - INFO - Processed 65900000 reads so far
2011-05-20 07:41:49,117 - INFO - Processed 66000000 reads so far
2011-05-20 07:41:59,301 - INFO - Processed 66100000 reads so far
2011-05-20 07:42:08,518 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:82990084-103010084
2011-05-20 07:42:09,022 - INFO - Processed 66200000 reads so far
2011-05-20 07:42:17,781 - INFO - Processed 66300000 reads so far
2011-05-20 07:42:26,635 - INFO - Processed 66400000 reads so far
2011-05-20 07:42:35,760 - INFO - Processed 66500000 reads so far
2011-05-20 07:42:45,434 - INFO - Processed 66600000 reads so far
2011-05-20 07:42:54,733 - INFO - Processed 66700000 reads so far
2011-05-20 07:43:03,371 - INFO - Processed 66800000 reads so far
2011-05-20 07:43:11,645 - INFO - Processed 66900000 reads so far
2011-05-20 07:43:19,963 - INFO - Processed 67000000 reads so far
2011-05-20 07:43:26,943 - INFO - Processed 67100000 reads so far
2011-05-20 07:43:34,136 - INFO - Processed 67200000 reads so far
2011-05-20 07:43:42,169 - INFO - Processed 67300000 reads so far
2011-05-20 07:43:49,688 - INFO - Processed 67400000 reads so far
2011-05-20 07:43:56,701 - INFO - Processed 67500000 reads so far
2011-05-20 07:44:03,436 - INFO - Processed 67600000 reads so far
2011-05-20 07:44:11,978 - INFO - Processed 67700000 reads so far
2011-05-20 07:44:18,724 - INFO - Processed 67800000 reads so far
2011-05-20 07:44:25,748 - INFO - Processed 67900000 reads so far
2011-05-20 07:44:32,918 - INFO - Processed 68000000 reads so far
2011-05-20 07:44:39,194 - INFO - Processed 68100000 reads so far
2011-05-20 07:44:45,297 - INFO - Processed 68200000 reads so far
2011-05-20 07:44:52,778 - INFO - Processed 68300000 reads so far
2011-05-20 07:45:00,068 - INFO - Processed 68400000 reads so far
2011-05-20 07:45:06,452 - INFO - Processed 68500000 reads so far
2011-05-20 07:45:13,784 - INFO - Processed 68600000 reads so far
2011-05-20 07:45:22,053 - INFO - Processed 68700000 reads so far
2011-05-20 07:45:28,085 - INFO - Processed 68800000 reads so far
2011-05-20 07:45:34,910 - INFO - Processed 68900000 reads so far
2011-05-20 07:45:43,128 - INFO - Processed 69000000 reads so far
2011-05-20 07:45:49,908 - INFO - Processed 69100000 reads so far
2011-05-20 07:45:56,502 - INFO - Processed 69200000 reads so far
2011-05-20 07:46:03,600 - INFO - Processed 69300000 reads so far
2011-05-20 07:46:12,024 - INFO - Processed 69400000 reads so far
2011-05-20 07:46:22,782 - INFO - Processed 69500000 reads so far
2011-05-20 07:46:32,237 - INFO - Processed 69600000 reads so far
2011-05-20 07:46:38,650 - INFO - Processed 69700000 reads so far
2011-05-20 07:46:45,392 - INFO - Processed 69800000 reads so far
2011-05-20 07:46:51,867 - INFO - Processed 69900000 reads so far
2011-05-20 07:46:58,618 - INFO - Processed 70000000 reads so far
2011-05-20 07:47:06,119 - INFO - Processed 70100000 reads so far
2011-05-20 07:47:13,080 - INFO - Processed 70200000 reads so far
2011-05-20 07:47:19,717 - INFO - Processed 70300000 reads so far
2011-05-20 07:47:26,570 - INFO - Processed 70400000 reads so far
2011-05-20 07:47:33,352 - INFO - Processed 70500000 reads so far
2011-05-20 07:47:40,448 - INFO - Processed 70600000 reads so far
2011-05-20 07:47:50,602 - INFO - Processed 70700000 reads so far
2011-05-20 07:47:57,478 - INFO - Processed 70800000 reads so far
2011-05-20 07:48:05,985 - INFO - Processed 70900000 reads so far
2011-05-20 07:48:12,947 - INFO - Processed 71000000 reads so far
2011-05-20 07:48:19,292 - INFO - Processed 71100000 reads so far
2011-05-20 07:48:25,731 - INFO - Processed 71200000 reads so far
2011-05-20 07:48:32,510 - INFO - Processed 71300000 reads so far
2011-05-20 07:48:40,387 - INFO - Processed 71400000 reads so far
2011-05-20 07:48:47,338 - INFO - Processed 71500000 reads so far
2011-05-20 07:48:54,302 - INFO - Processed 71600000 reads so far
2011-05-20 07:49:03,242 - INFO - Processed 71700000 reads so far
2011-05-20 07:49:11,830 - INFO - Processed 71800000 reads so far
2011-05-20 07:49:21,184 - INFO - Processed 71900000 reads so far
2011-05-20 07:49:31,073 - INFO - Processed 72000000 reads so far
2011-05-20 07:49:40,503 - INFO - Processed 72100000 reads so far
2011-05-20 07:49:48,144 - INFO - Processed 72200000 reads so far
2011-05-20 07:49:56,224 - INFO - Processed 72300000 reads so far
2011-05-20 07:50:04,443 - INFO - Processed 72400000 reads so far
2011-05-20 07:50:11,958 - INFO - Processed 72500000 reads so far
2011-05-20 07:50:22,464 - INFO - Processed 72600000 reads so far
2011-05-20 07:50:32,011 - INFO - Processed 72700000 reads so far
2011-05-20 07:50:41,883 - INFO - Processed 72800000 reads so far
2011-05-20 07:50:51,798 - INFO - Processed 72900000 reads so far
2011-05-20 07:51:01,282 - INFO - Processed 73000000 reads so far
2011-05-20 07:51:11,460 - INFO - Processed 73100000 reads so far
2011-05-20 07:51:20,407 - INFO - Processed 73200000 reads so far
2011-05-20 07:51:28,768 - INFO - Processed 73300000 reads so far
2011-05-20 07:51:37,980 - INFO - Processed 73400000 reads so far
2011-05-20 07:51:47,608 - INFO - Processed 73500000 reads so far
2011-05-20 07:51:56,982 - INFO - Processed 73600000 reads so far
2011-05-20 07:52:06,332 - INFO - Processed 73700000 reads so far
2011-05-20 07:52:15,826 - INFO - Processed 73800000 reads so far
2011-05-20 07:52:24,984 - INFO - Processed 73900000 reads so far
2011-05-20 07:52:34,768 - INFO - Processed 74000000 reads so far
2011-05-20 07:52:44,119 - INFO - Processed 74100000 reads so far
2011-05-20 07:52:53,543 - INFO - Processed 74200000 reads so far
2011-05-20 07:53:03,539 - INFO - Processed 74300000 reads so far
2011-05-20 07:53:13,779 - INFO - Processed 74400000 reads so far
2011-05-20 07:53:23,950 - INFO - Processed 74500000 reads so far
2011-05-20 07:53:34,665 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:102990094-123010094
2011-05-20 07:53:35,109 - INFO - Processed 74600000 reads so far
2011-05-20 07:53:42,267 - INFO - Processed 74700000 reads so far
2011-05-20 07:53:54,018 - INFO - Processed 74800000 reads so far
2011-05-20 07:54:02,515 - INFO - Processed 74900000 reads so far
2011-05-20 07:54:11,757 - INFO - Processed 75000000 reads so far
2011-05-20 07:54:22,482 - INFO - Processed 75100000 reads so far
2011-05-20 07:54:32,528 - INFO - Processed 75200000 reads so far
2011-05-20 07:54:41,692 - INFO - Processed 75300000 reads so far
2011-05-20 07:54:50,922 - INFO - Processed 75400000 reads so far
2011-05-20 07:55:01,754 - INFO - Processed 75500000 reads so far
2011-05-20 07:55:08,986 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:122990111-143010111
2011-05-20 07:55:09,178 - INFO - Processed 75600000 reads so far
2011-05-20 07:55:16,653 - INFO - Processed 75700000 reads so far
2011-05-20 07:55:24,267 - INFO - Processed 75800000 reads so far
2011-05-20 07:55:34,986 - INFO - Processed 75900000 reads so far
2011-05-20 07:55:43,767 - INFO - Processed 76000000 reads so far
2011-05-20 07:55:52,711 - INFO - Processed 76100000 reads so far
2011-05-20 07:56:00,596 - INFO - Processed 76200000 reads so far
2011-05-20 07:56:08,061 - INFO - Processed 76300000 reads so far
2011-05-20 07:56:15,546 - INFO - Processed 76400000 reads so far
2011-05-20 07:56:22,517 - INFO - Processed 76500000 reads so far
2011-05-20 07:56:29,443 - INFO - Processed 76600000 reads so far
2011-05-20 07:56:31,609 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:142990115-163010115
2011-05-20 07:56:38,817 - INFO - Processed 76700000 reads so far
2011-05-20 07:56:49,193 - INFO - Processed 76800000 reads so far
2011-05-20 07:56:57,158 - INFO - Processed 76900000 reads so far
2011-05-20 07:57:07,424 - INFO - Processed 77000000 reads so far
2011-05-20 07:57:15,999 - INFO - Processed 77100000 reads so far
2011-05-20 07:57:25,548 - INFO - Processed 77200000 reads so far
2011-05-20 07:57:33,914 - INFO - Processed 77300000 reads so far
2011-05-20 07:57:42,426 - INFO - Processed 77400000 reads so far
2011-05-20 07:57:51,858 - INFO - Processed 77500000 reads so far
2011-05-20 07:58:00,406 - INFO - Processed 77600000 reads so far
2011-05-20 07:58:04,433 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr2:162990121-183010121
2011-05-20 07:58:09,791 - INFO - Processed 77700000 reads so far
2011-05-20 07:58:17,997 - INFO - Processed 77800000 reads so far
2011-05-20 07:58:26,620 - INFO - Processed 77900000 reads so far
2011-05-20 07:58:37,371 - INFO - Processed 78000000 reads so far
2011-05-20 07:58:47,770 - INFO - Processed 78100000 reads so far
2011-05-20 07:58:58,874 - INFO - Processed 78200000 reads so far
2011-05-20 07:59:10,059 - INFO - Processed 78300000 reads so far
2011-05-20 07:59:21,139 - INFO - Processed 78400000 reads so far
2011-05-20 07:59:29,144 - INFO - Processed 78500000 reads so far
2011-05-20 07:59:38,203 - INFO - Processed 78600000 reads so far
2011-05-20 07:59:38,835 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:2989999-23009999
2011-05-20 07:59:47,426 - INFO - Processed 78700000 reads so far
2011-05-20 07:59:57,408 - INFO - Processed 78800000 reads so far
2011-05-20 08:00:06,727 - INFO - Processed 78900000 reads so far
2011-05-20 08:00:17,171 - INFO - Processed 79000000 reads so far
2011-05-20 08:00:28,811 - INFO - Processed 79100000 reads so far
2011-05-20 08:00:37,989 - INFO - Processed 79200000 reads so far
2011-05-20 08:00:46,362 - INFO - Processed 79300000 reads so far
2011-05-20 08:00:57,410 - INFO - Processed 79400000 reads so far
2011-05-20 08:01:08,728 - INFO - Processed 79500000 reads so far
2011-05-20 08:01:17,942 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:22990106-43010106
2011-05-20 08:01:20,247 - INFO - Processed 79600000 reads so far
2011-05-20 08:01:32,832 - INFO - Processed 79700000 reads so far
2011-05-20 08:01:41,852 - INFO - Processed 79800000 reads so far
2011-05-20 08:01:52,396 - INFO - Processed 79900000 reads so far
2011-05-20 08:02:02,156 - INFO - Processed 80000000 reads so far
2011-05-20 08:02:11,107 - INFO - Processed 80100000 reads so far
2011-05-20 08:02:22,607 - INFO - Processed 80200000 reads so far
2011-05-20 08:02:34,297 - INFO - Processed 80300000 reads so far
2011-05-20 08:02:44,793 - INFO - Processed 80400000 reads so far
2011-05-20 08:02:58,168 - INFO - Processed 80500000 reads so far
2011-05-20 08:03:05,947 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:42990108-63010108
2011-05-20 08:03:07,089 - INFO - Processed 80600000 reads so far
2011-05-20 08:03:18,735 - INFO - Processed 80700000 reads so far
2011-05-20 08:03:31,764 - INFO - Processed 80800000 reads so far
2011-05-20 08:03:43,610 - INFO - Processed 80900000 reads so far
2011-05-20 08:03:52,371 - INFO - Processed 81000000 reads so far
2011-05-20 08:04:03,162 - INFO - Processed 81100000 reads so far
2011-05-20 08:04:10,355 - INFO - Processed 81200000 reads so far
2011-05-20 08:04:18,130 - INFO - Processed 81300000 reads so far
2011-05-20 08:04:28,686 - INFO - Processed 81400000 reads so far
2011-05-20 08:04:41,935 - INFO - Processed 81500000 reads so far
2011-05-20 08:04:47,013 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:62990119-83010119
2011-05-20 08:04:51,613 - INFO - Processed 81600000 reads so far
2011-05-20 08:05:00,371 - INFO - Processed 81700000 reads so far
2011-05-20 08:05:09,154 - INFO - Processed 81800000 reads so far
2011-05-20 08:05:20,432 - INFO - Processed 81900000 reads so far
2011-05-20 08:05:30,267 - INFO - Processed 82000000 reads so far
2011-05-20 08:05:37,668 - INFO - Processed 82100000 reads so far
2011-05-20 08:05:49,048 - INFO - Processed 82200000 reads so far
2011-05-20 08:05:58,683 - INFO - Processed 82300000 reads so far
2011-05-20 08:06:08,206 - INFO - Processed 82400000 reads so far
2011-05-20 08:06:18,174 - INFO - Processed 82500000 reads so far
2011-05-20 08:06:20,549 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:82990153-103010153
2011-05-20 08:06:29,129 - INFO - Processed 82600000 reads so far
2011-05-20 08:06:38,137 - INFO - Processed 82700000 reads so far
2011-05-20 08:06:48,254 - INFO - Processed 82800000 reads so far
2011-05-20 08:06:56,462 - INFO - Processed 82900000 reads so far
2011-05-20 08:07:09,436 - INFO - Processed 83000000 reads so far
2011-05-20 08:07:18,353 - INFO - Processed 83100000 reads so far
2011-05-20 08:07:27,156 - INFO - Processed 83200000 reads so far
2011-05-20 08:07:36,606 - INFO - Processed 83300000 reads so far
2011-05-20 08:07:47,272 - INFO - Processed 83400000 reads so far
2011-05-20 08:07:58,921 - INFO - Processed 83500000 reads so far
2011-05-20 08:08:01,475 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:102990183-123010183
2011-05-20 08:08:06,804 - INFO - Processed 83600000 reads so far
2011-05-20 08:08:16,692 - INFO - Processed 83700000 reads so far
2011-05-20 08:08:25,210 - INFO - Processed 83800000 reads so far
2011-05-20 08:08:32,324 - INFO - Processed 83900000 reads so far
2011-05-20 08:08:39,406 - INFO - Processed 84000000 reads so far
2011-05-20 08:08:47,623 - INFO - Processed 84100000 reads so far
2011-05-20 08:08:58,588 - INFO - Processed 84200000 reads so far
2011-05-20 08:09:10,720 - INFO - Processed 84300000 reads so far
2011-05-20 08:09:22,621 - INFO - Processed 84400000 reads so far
2011-05-20 08:09:37,758 - INFO - Processed 84500000 reads so far
2011-05-20 08:09:40,829 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:122990189-143010189
2011-05-20 08:09:48,787 - INFO - Processed 84600000 reads so far
2011-05-20 08:10:05,148 - INFO - Processed 84700000 reads so far
2011-05-20 08:10:16,787 - INFO - Processed 84800000 reads so far
2011-05-20 08:10:29,216 - INFO - Processed 84900000 reads so far
2011-05-20 08:10:40,755 - INFO - Processed 85000000 reads so far
2011-05-20 08:10:52,273 - INFO - Processed 85100000 reads so far
2011-05-20 08:11:06,871 - INFO - Processed 85200000 reads so far
2011-05-20 08:11:18,576 - INFO - Processed 85300000 reads so far
2011-05-20 08:11:31,865 - INFO - Processed 85400000 reads so far
2011-05-20 08:11:43,447 - INFO - Processed 85500000 reads so far
2011-05-20 08:11:47,549 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3:142990196-163010196
2011-05-20 08:11:55,819 - INFO - Processed 85600000 reads so far
2011-05-20 08:12:07,862 - INFO - Processed 85700000 reads so far
2011-05-20 08:12:19,253 - INFO - Processed 85800000 reads so far
2011-05-20 08:12:30,747 - INFO - Processed 85900000 reads so far
2011-05-20 08:12:42,465 - INFO - Processed 86000000 reads so far
2011-05-20 08:12:54,141 - INFO - Processed 86100000 reads so far
2011-05-20 08:13:05,757 - INFO - Processed 86200000 reads so far
2011-05-20 08:13:18,781 - INFO - Processed 86300000 reads so far
2011-05-20 08:13:28,415 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr3_random:0-20010019
2011-05-20 08:13:28,554 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:2989977-23009977
2011-05-20 08:13:30,166 - INFO - Processed 86400000 reads so far
2011-05-20 08:13:42,391 - INFO - Processed 86500000 reads so far
2011-05-20 08:13:53,956 - INFO - Processed 86600000 reads so far
2011-05-20 08:14:05,535 - INFO - Processed 86700000 reads so far
2011-05-20 08:14:17,579 - INFO - Processed 86800000 reads so far
2011-05-20 08:14:29,197 - INFO - Processed 86900000 reads so far
2011-05-20 08:14:40,774 - INFO - Processed 87000000 reads so far
2011-05-20 08:14:52,162 - INFO - Processed 87100000 reads so far
2011-05-20 08:15:05,093 - INFO - Processed 87200000 reads so far
2011-05-20 08:15:16,633 - INFO - Processed 87300000 reads so far
2011-05-20 08:15:29,341 - INFO - Processed 87400000 reads so far
2011-05-20 08:15:29,351 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:22989983-43009983
2011-05-20 08:15:41,141 - INFO - Processed 87500000 reads so far
2011-05-20 08:15:53,290 - INFO - Processed 87600000 reads so far
2011-05-20 08:16:05,077 - INFO - Processed 87700000 reads so far
2011-05-20 08:16:17,049 - INFO - Processed 87800000 reads so far
2011-05-20 08:16:31,793 - INFO - Processed 87900000 reads so far
2011-05-20 08:16:45,833 - INFO - Processed 88000000 reads so far
2011-05-20 08:16:58,665 - INFO - Processed 88100000 reads so far
2011-05-20 08:17:12,150 - INFO - Processed 88200000 reads so far
2011-05-20 08:17:25,457 - INFO - Processed 88300000 reads so far
2011-05-20 08:17:29,970 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:42989995-63009995
2011-05-20 08:17:38,567 - INFO - Processed 88400000 reads so far
2011-05-20 08:17:50,492 - INFO - Processed 88500000 reads so far
2011-05-20 08:18:02,050 - INFO - Processed 88600000 reads so far
2011-05-20 08:18:14,547 - INFO - Processed 88700000 reads so far
2011-05-20 08:18:27,129 - INFO - Processed 88800000 reads so far
2011-05-20 08:18:40,786 - INFO - Processed 88900000 reads so far
2011-05-20 08:18:52,606 - INFO - Processed 89000000 reads so far
2011-05-20 08:19:05,068 - INFO - Processed 89100000 reads so far
2011-05-20 08:19:16,575 - INFO - Processed 89200000 reads so far
2011-05-20 08:19:28,004 - INFO - Processed 89300000 reads so far
2011-05-20 08:19:35,356 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:62990018-83010018
2011-05-20 08:19:40,167 - INFO - Processed 89400000 reads so far
2011-05-20 08:19:51,764 - INFO - Processed 89500000 reads so far
2011-05-20 08:20:03,601 - INFO - Processed 89600000 reads so far
2011-05-20 08:20:16,971 - INFO - Processed 89700000 reads so far
2011-05-20 08:20:28,253 - INFO - Processed 89800000 reads so far
2011-05-20 08:20:39,581 - INFO - Processed 89900000 reads so far
2011-05-20 08:20:51,264 - INFO - Processed 90000000 reads so far
2011-05-20 08:21:03,222 - INFO - Processed 90100000 reads so far
2011-05-20 08:21:15,099 - INFO - Processed 90200000 reads so far
2011-05-20 08:21:26,541 - INFO - Processed 90300000 reads so far
2011-05-20 08:21:32,877 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:82990022-103010022
2011-05-20 08:21:39,232 - INFO - Processed 90400000 reads so far
2011-05-20 08:21:50,828 - INFO - Processed 90500000 reads so far
2011-05-20 08:22:02,385 - INFO - Processed 90600000 reads so far
2011-05-20 08:22:14,039 - INFO - Processed 90700000 reads so far
2011-05-20 08:22:25,599 - INFO - Processed 90800000 reads so far
2011-05-20 08:22:37,004 - INFO - Processed 90900000 reads so far
2011-05-20 08:22:48,541 - INFO - Processed 91000000 reads so far
2011-05-20 08:22:59,094 - INFO - Processed 91100000 reads so far
2011-05-20 08:23:11,931 - INFO - Processed 91200000 reads so far
2011-05-20 08:23:25,532 - INFO - Processed 91300000 reads so far
2011-05-20 08:23:33,095 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:102990072-123010072
2011-05-20 08:23:36,859 - INFO - Processed 91400000 reads so far
2011-05-20 08:23:46,057 - INFO - Processed 91500000 reads so far
2011-05-20 08:23:53,470 - INFO - Processed 91600000 reads so far
2011-05-20 08:24:01,237 - INFO - Processed 91700000 reads so far
2011-05-20 08:24:12,200 - INFO - Processed 91800000 reads so far
2011-05-20 08:24:22,389 - INFO - Processed 91900000 reads so far
2011-05-20 08:24:31,094 - INFO - Processed 92000000 reads so far
2011-05-20 08:24:43,161 - INFO - Processed 92100000 reads so far
2011-05-20 08:24:53,107 - INFO - Processed 92200000 reads so far
2011-05-20 08:25:01,474 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:122990259-143010259
2011-05-20 08:25:02,226 - INFO - Processed 92300000 reads so far
2011-05-20 08:25:12,446 - INFO - Processed 92400000 reads so far
2011-05-20 08:25:21,560 - INFO - Processed 92500000 reads so far
2011-05-20 08:25:33,013 - INFO - Processed 92600000 reads so far
2011-05-20 08:25:43,605 - INFO - Processed 92700000 reads so far
2011-05-20 08:25:53,508 - INFO - Processed 92800000 reads so far
2011-05-20 08:26:03,199 - INFO - Processed 92900000 reads so far
2011-05-20 08:26:10,750 - INFO - Processed 93000000 reads so far
2011-05-20 08:26:23,249 - INFO - Processed 93100000 reads so far
2011-05-20 08:26:33,112 - INFO - Processed 93200000 reads so far
2011-05-20 08:26:39,601 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4:142990270-163010270
2011-05-20 08:26:43,153 - INFO - Processed 93300000 reads so far
2011-05-20 08:26:51,338 - INFO - Processed 93400000 reads so far
2011-05-20 08:27:01,911 - INFO - Processed 93500000 reads so far
2011-05-20 08:27:08,960 - INFO - Processed 93600000 reads so far
2011-05-20 08:27:17,837 - INFO - Processed 93700000 reads so far
2011-05-20 08:27:29,924 - INFO - Processed 93800000 reads so far
2011-05-20 08:27:41,600 - INFO - Processed 93900000 reads so far
2011-05-20 08:27:53,635 - INFO - Processed 94000000 reads so far
2011-05-20 08:27:56,621 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr4_random:0-20010004
2011-05-20 08:27:57,583 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:2990033-23010033
2011-05-20 08:28:06,006 - INFO - Processed 94100000 reads so far
2011-05-20 08:28:17,806 - INFO - Processed 94200000 reads so far
2011-05-20 08:28:29,334 - INFO - Processed 94300000 reads so far
2011-05-20 08:28:41,328 - INFO - Processed 94400000 reads so far
2011-05-20 08:28:52,986 - INFO - Processed 94500000 reads so far
2011-05-20 08:29:04,653 - INFO - Processed 94600000 reads so far
2011-05-20 08:29:15,757 - INFO - Processed 94700000 reads so far
2011-05-20 08:29:26,076 - INFO - Processed 94800000 reads so far
2011-05-20 08:29:34,051 - INFO - Processed 94900000 reads so far
2011-05-20 08:29:46,070 - INFO - Processed 95000000 reads so far
2011-05-20 08:29:50,143 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:22990521-43010521
2011-05-20 08:29:59,618 - INFO - Processed 95100000 reads so far
2011-05-20 08:30:10,876 - INFO - Processed 95200000 reads so far
2011-05-20 08:30:22,307 - INFO - Processed 95300000 reads so far
2011-05-20 08:30:33,811 - INFO - Processed 95400000 reads so far
2011-05-20 08:30:47,524 - INFO - Processed 95500000 reads so far
2011-05-20 08:30:59,219 - INFO - Processed 95600000 reads so far
2011-05-20 08:31:10,846 - INFO - Processed 95700000 reads so far
2011-05-20 08:31:22,881 - INFO - Processed 95800000 reads so far
2011-05-20 08:31:35,616 - INFO - Processed 95900000 reads so far
2011-05-20 08:31:47,589 - INFO - Processed 96000000 reads so far
2011-05-20 08:31:51,263 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:42990524-63010524
2011-05-20 08:32:00,218 - INFO - Processed 96100000 reads so far
2011-05-20 08:32:10,320 - INFO - Processed 96200000 reads so far
2011-05-20 08:32:20,006 - INFO - Processed 96300000 reads so far
2011-05-20 08:32:32,268 - INFO - Processed 96400000 reads so far
2011-05-20 08:32:44,374 - INFO - Processed 96500000 reads so far
2011-05-20 08:32:54,100 - INFO - Processed 96600000 reads so far
2011-05-20 08:33:04,157 - INFO - Processed 96700000 reads so far
2011-05-20 08:33:17,267 - INFO - Processed 96800000 reads so far
2011-05-20 08:33:28,763 - INFO - Processed 96900000 reads so far
2011-05-20 08:33:39,869 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:62990554-83010554
2011-05-20 08:33:40,897 - INFO - Processed 97000000 reads so far
2011-05-20 08:33:52,340 - INFO - Processed 97100000 reads so far
2011-05-20 08:34:04,425 - INFO - Processed 97200000 reads so far
2011-05-20 08:34:15,912 - INFO - Processed 97300000 reads so far
2011-05-20 08:34:27,665 - INFO - Processed 97400000 reads so far
2011-05-20 08:34:39,517 - INFO - Processed 97500000 reads so far
2011-05-20 08:34:51,709 - INFO - Processed 97600000 reads so far
2011-05-20 08:35:03,897 - INFO - Processed 97700000 reads so far
2011-05-20 08:35:15,434 - INFO - Processed 97800000 reads so far
2011-05-20 08:35:26,657 - INFO - Processed 97900000 reads so far
2011-05-20 08:35:36,120 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:82990569-103010569
2011-05-20 08:35:40,014 - INFO - Processed 98000000 reads so far
2011-05-20 08:35:51,450 - INFO - Processed 98100000 reads so far
2011-05-20 08:36:04,099 - INFO - Processed 98200000 reads so far
2011-05-20 08:36:16,501 - INFO - Processed 98300000 reads so far
2011-05-20 08:36:28,136 - INFO - Processed 98400000 reads so far
2011-05-20 08:36:38,065 - INFO - Processed 98500000 reads so far
2011-05-20 08:36:48,987 - INFO - Processed 98600000 reads so far
2011-05-20 08:36:59,511 - INFO - Processed 98700000 reads so far
2011-05-20 08:37:08,485 - INFO - Processed 98800000 reads so far
2011-05-20 08:37:19,835 - INFO - Processed 98900000 reads so far
2011-05-20 08:37:21,613 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:102990574-123010574
2011-05-20 08:37:28,689 - INFO - Processed 99000000 reads so far
2011-05-20 08:37:38,469 - INFO - Processed 99100000 reads so far
2011-05-20 08:37:49,121 - INFO - Processed 99200000 reads so far
2011-05-20 08:38:00,240 - INFO - Processed 99300000 reads so far
2011-05-20 08:38:13,297 - INFO - Processed 99400000 reads so far
2011-05-20 08:38:22,643 - INFO - Processed 99500000 reads so far
2011-05-20 08:38:32,821 - INFO - Processed 99600000 reads so far
2011-05-20 08:38:44,320 - INFO - Processed 99700000 reads so far
2011-05-20 08:38:55,209 - INFO - Processed 99800000 reads so far
2011-05-20 08:39:05,826 - INFO - Processed 99900000 reads so far
2011-05-20 08:39:07,556 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:122990605-143010605
2011-05-20 08:39:14,641 - INFO - Processed 100000000 reads so far
2011-05-20 08:39:27,575 - INFO - Processed 100100000 reads so far
2011-05-20 08:39:37,128 - INFO - Processed 100200000 reads so far
2011-05-20 08:39:48,556 - INFO - Processed 100300000 reads so far
2011-05-20 08:39:57,569 - INFO - Processed 100400000 reads so far
2011-05-20 08:40:06,902 - INFO - Processed 100500000 reads so far
2011-05-20 08:40:18,244 - INFO - Processed 100600000 reads so far
2011-05-20 08:40:31,909 - INFO - Processed 100700000 reads so far
2011-05-20 08:40:47,346 - INFO - Processed 100800000 reads so far
2011-05-20 08:41:00,272 - INFO - Processed 100900000 reads so far
2011-05-20 08:41:02,868 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5:142990614-163010614
2011-05-20 08:41:12,185 - INFO - Processed 101000000 reads so far
2011-05-20 08:41:25,512 - INFO - Processed 101100000 reads so far
2011-05-20 08:41:37,211 - INFO - Processed 101200000 reads so far
2011-05-20 08:41:50,764 - INFO - Processed 101300000 reads so far
2011-05-20 08:42:02,290 - INFO - Processed 101400000 reads so far
2011-05-20 08:42:03,557 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr5_random:0-20010058
2011-05-20 08:42:03,956 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:2989995-23009995
2011-05-20 08:42:13,997 - INFO - Processed 101500000 reads so far
2011-05-20 08:42:26,214 - INFO - Processed 101600000 reads so far
2011-05-20 08:42:37,294 - INFO - Processed 101700000 reads so far
2011-05-20 08:42:45,920 - INFO - Processed 101800000 reads so far
2011-05-20 08:42:54,542 - INFO - Processed 101900000 reads so far
2011-05-20 08:43:05,529 - INFO - Processed 102000000 reads so far
2011-05-20 08:43:15,519 - INFO - Processed 102100000 reads so far
2011-05-20 08:43:25,951 - INFO - Processed 102200000 reads so far
2011-05-20 08:43:36,585 - INFO - Processed 102300000 reads so far
2011-05-20 08:43:43,770 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:22989999-43009999
2011-05-20 08:43:45,117 - INFO - Processed 102400000 reads so far
2011-05-20 08:43:57,448 - INFO - Processed 102500000 reads so far
2011-05-20 08:44:11,793 - INFO - Processed 102600000 reads so far
2011-05-20 08:44:29,123 - INFO - Processed 102700000 reads so far
2011-05-20 08:44:39,350 - INFO - Processed 102800000 reads so far
2011-05-20 08:44:51,017 - INFO - Processed 102900000 reads so far
2011-05-20 08:45:03,516 - INFO - Processed 103000000 reads so far
2011-05-20 08:45:13,993 - INFO - Processed 103100000 reads so far
2011-05-20 08:45:23,943 - INFO - Processed 103200000 reads so far
2011-05-20 08:45:35,221 - INFO - Processed 103300000 reads so far
2011-05-20 08:45:45,928 - INFO - Processed 103400000 reads so far
2011-05-20 08:45:46,043 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:42990006-63010006
2011-05-20 08:45:55,805 - INFO - Processed 103500000 reads so far
2011-05-20 08:46:04,744 - INFO - Processed 103600000 reads so far
2011-05-20 08:46:14,630 - INFO - Processed 103700000 reads so far
2011-05-20 08:46:22,910 - INFO - Processed 103800000 reads so far
2011-05-20 08:46:34,338 - INFO - Processed 103900000 reads so far
2011-05-20 08:46:45,275 - INFO - Processed 104000000 reads so far
2011-05-20 08:46:54,498 - INFO - Processed 104100000 reads so far
2011-05-20 08:47:04,014 - INFO - Processed 104200000 reads so far
2011-05-20 08:47:13,885 - INFO - Processed 104300000 reads so far
2011-05-20 08:47:21,544 - INFO - Processed 104400000 reads so far
2011-05-20 08:47:25,341 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:62990012-83010012
2011-05-20 08:47:30,402 - INFO - Processed 104500000 reads so far
2011-05-20 08:47:38,797 - INFO - Processed 104600000 reads so far
2011-05-20 08:47:47,872 - INFO - Processed 104700000 reads so far
2011-05-20 08:47:59,391 - INFO - Processed 104800000 reads so far
2011-05-20 08:48:06,880 - INFO - Processed 104900000 reads so far
2011-05-20 08:48:14,673 - INFO - Processed 105000000 reads so far
2011-05-20 08:48:21,720 - INFO - Processed 105100000 reads so far
2011-05-20 08:48:30,740 - INFO - Processed 105200000 reads so far
2011-05-20 08:48:41,022 - INFO - Processed 105300000 reads so far
2011-05-20 08:48:53,193 - INFO - Processed 105400000 reads so far
2011-05-20 08:48:53,546 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:82990022-103010022
2011-05-20 08:49:07,287 - INFO - Processed 105500000 reads so far
2011-05-20 08:49:18,822 - INFO - Processed 105600000 reads so far
2011-05-20 08:49:29,990 - INFO - Processed 105700000 reads so far
2011-05-20 08:49:42,005 - INFO - Processed 105800000 reads so far
2011-05-20 08:49:53,644 - INFO - Processed 105900000 reads so far
2011-05-20 08:50:05,540 - INFO - Processed 106000000 reads so far
2011-05-20 08:50:16,540 - INFO - Processed 106100000 reads so far
2011-05-20 08:50:28,910 - INFO - Processed 106200000 reads so far
2011-05-20 08:50:42,286 - INFO - Processed 106300000 reads so far
2011-05-20 08:50:53,723 - INFO - Processed 106400000 reads so far
2011-05-20 08:50:57,870 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:102990051-123010051
2011-05-20 08:51:04,714 - INFO - Processed 106500000 reads so far
2011-05-20 08:51:15,422 - INFO - Processed 106600000 reads so far
2011-05-20 08:51:25,120 - INFO - Processed 106700000 reads so far
2011-05-20 08:51:34,833 - INFO - Processed 106800000 reads so far
2011-05-20 08:51:45,565 - INFO - Processed 106900000 reads so far
2011-05-20 08:51:55,399 - INFO - Processed 107000000 reads so far
2011-05-20 08:52:06,094 - INFO - Processed 107100000 reads so far
2011-05-20 08:52:15,810 - INFO - Processed 107200000 reads so far
2011-05-20 08:52:25,847 - INFO - Processed 107300000 reads so far
2011-05-20 08:52:38,725 - INFO - Processed 107400000 reads so far
2011-05-20 08:52:50,343 - INFO - Processed 107500000 reads so far
2011-05-20 08:53:01,956 - INFO - Processed 107600000 reads so far
2011-05-20 08:53:13,642 - INFO - Processed 107700000 reads so far
2011-05-20 08:53:25,388 - INFO - Processed 107800000 reads so far
2011-05-20 08:53:37,106 - INFO - Processed 107900000 reads so far
2011-05-20 08:53:50,200 - INFO - Processed 108000000 reads so far
2011-05-20 08:54:01,360 - INFO - Processed 108100000 reads so far
2011-05-20 08:54:13,404 - INFO - Processed 108200000 reads so far
2011-05-20 08:54:19,538 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:122990065-143010065
2011-05-20 08:54:25,139 - INFO - Processed 108300000 reads so far
2011-05-20 08:54:36,603 - INFO - Processed 108400000 reads so far
2011-05-20 08:54:47,336 - INFO - Processed 108500000 reads so far
2011-05-20 08:54:59,211 - INFO - Processed 108600000 reads so far
2011-05-20 08:55:10,758 - INFO - Processed 108700000 reads so far
2011-05-20 08:55:22,331 - INFO - Processed 108800000 reads so far
2011-05-20 08:55:33,204 - INFO - Processed 108900000 reads so far
2011-05-20 08:55:43,269 - INFO - Processed 109000000 reads so far
2011-05-20 08:55:51,631 - INFO - Processed 109100000 reads so far
2011-05-20 08:55:59,272 - INFO - Processed 109200000 reads so far
2011-05-20 08:56:12,931 - INFO - Processed 109300000 reads so far
2011-05-20 08:56:14,668 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr6:142990073-163010073
2011-05-20 08:56:24,357 - INFO - Processed 109400000 reads so far
2011-05-20 08:56:36,290 - INFO - Processed 109500000 reads so far
2011-05-20 08:56:47,488 - INFO - Processed 109600000 reads so far
2011-05-20 08:56:53,626 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:2990001-23010001
2011-05-20 08:56:58,195 - INFO - Processed 109700000 reads so far
2011-05-20 08:57:08,108 - INFO - Processed 109800000 reads so far
2011-05-20 08:57:20,394 - INFO - Processed 109900000 reads so far
2011-05-20 08:57:32,495 - INFO - Processed 110000000 reads so far
2011-05-20 08:57:43,843 - INFO - Processed 110100000 reads so far
2011-05-20 08:57:54,543 - INFO - Processed 110200000 reads so far
2011-05-20 08:58:05,115 - INFO - Processed 110300000 reads so far
2011-05-20 08:58:14,296 - INFO - Processed 110400000 reads so far
2011-05-20 08:58:24,738 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:22990014-43010014
2011-05-20 08:58:26,344 - INFO - Processed 110500000 reads so far
2011-05-20 08:58:35,282 - INFO - Processed 110600000 reads so far
2011-05-20 08:58:47,025 - INFO - Processed 110700000 reads so far
2011-05-20 08:58:58,901 - INFO - Processed 110800000 reads so far
2011-05-20 08:59:10,677 - INFO - Processed 110900000 reads so far
2011-05-20 08:59:19,513 - INFO - Processed 111000000 reads so far
2011-05-20 08:59:28,757 - INFO - Processed 111100000 reads so far
2011-05-20 08:59:36,777 - INFO - Processed 111200000 reads so far
2011-05-20 08:59:43,460 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:46351875-66371875
2011-05-20 08:59:48,124 - INFO - Processed 111300000 reads so far
2011-05-20 08:59:59,367 - INFO - Processed 111400000 reads so far
2011-05-20 09:00:10,700 - INFO - Processed 111500000 reads so far
2011-05-20 09:00:23,703 - INFO - Processed 111600000 reads so far
2011-05-20 09:00:32,290 - INFO - Processed 111700000 reads so far
2011-05-20 09:00:44,251 - INFO - Processed 111800000 reads so far
2011-05-20 09:00:56,085 - INFO - Processed 111900000 reads so far
2011-05-20 09:01:07,583 - INFO - Processed 112000000 reads so far
2011-05-20 09:01:19,686 - INFO - Processed 112100000 reads so far
2011-05-20 09:01:33,347 - INFO - Processed 112200000 reads so far
2011-05-20 09:01:38,227 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:66351876-86371876
2011-05-20 09:01:43,695 - INFO - Processed 112300000 reads so far
2011-05-20 09:01:53,527 - INFO - Processed 112400000 reads so far
2011-05-20 09:02:04,459 - INFO - Processed 112500000 reads so far
2011-05-20 09:02:17,773 - INFO - Processed 112600000 reads so far
2011-05-20 09:02:29,531 - INFO - Processed 112700000 reads so far
2011-05-20 09:02:40,534 - INFO - Processed 112800000 reads so far
2011-05-20 09:02:50,650 - INFO - Processed 112900000 reads so far
2011-05-20 09:03:00,024 - INFO - Processed 113000000 reads so far
2011-05-20 09:03:10,293 - INFO - Processed 113100000 reads so far
2011-05-20 09:03:22,573 - INFO - Processed 113200000 reads so far
2011-05-20 09:03:30,184 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:86351941-106371941
2011-05-20 09:03:33,304 - INFO - Processed 113300000 reads so far
2011-05-20 09:03:44,696 - INFO - Processed 113400000 reads so far
2011-05-20 09:04:23,854 - INFO - Processed 113500000 reads so far
2011-05-20 09:04:34,659 - INFO - Processed 113600000 reads so far
2011-05-20 09:04:47,094 - INFO - Processed 113700000 reads so far
2011-05-20 09:04:58,181 - INFO - Processed 113800000 reads so far
2011-05-20 09:05:09,092 - INFO - Processed 113900000 reads so far
2011-05-20 09:05:21,615 - INFO - Processed 114000000 reads so far
2011-05-20 09:05:31,880 - INFO - Processed 114100000 reads so far
2011-05-20 09:05:42,731 - INFO - Processed 114200000 reads so far
2011-05-20 09:05:50,323 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:106351995-126371995
2011-05-20 09:05:54,060 - INFO - Processed 114300000 reads so far
2011-05-20 09:06:04,703 - INFO - Processed 114400000 reads so far
2011-05-20 09:06:15,850 - INFO - Processed 114500000 reads so far
2011-05-20 09:06:27,327 - INFO - Processed 114600000 reads so far
2011-05-20 09:06:37,573 - INFO - Processed 114700000 reads so far
2011-05-20 09:06:46,810 - INFO - Processed 114800000 reads so far
2011-05-20 09:06:57,748 - INFO - Processed 114900000 reads so far
2011-05-20 09:07:07,992 - INFO - Processed 115000000 reads so far
2011-05-20 09:07:18,651 - INFO - Processed 115100000 reads so far
2011-05-20 09:07:29,068 - INFO - Processed 115200000 reads so far
2011-05-20 09:07:37,049 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:126352002-146372002
2011-05-20 09:07:40,150 - INFO - Processed 115300000 reads so far
2011-05-20 09:07:49,433 - INFO - Processed 115400000 reads so far
2011-05-20 09:07:58,826 - INFO - Processed 115500000 reads so far
2011-05-20 09:08:08,107 - INFO - Processed 115600000 reads so far
2011-05-20 09:08:19,399 - INFO - Processed 115700000 reads so far
2011-05-20 09:08:30,058 - INFO - Processed 115800000 reads so far
2011-05-20 09:08:41,651 - INFO - Processed 115900000 reads so far
2011-05-20 09:08:53,335 - INFO - Processed 116000000 reads so far
2011-05-20 09:09:04,454 - INFO - Processed 116100000 reads so far
2011-05-20 09:09:16,464 - INFO - Processed 116200000 reads so far
2011-05-20 09:09:33,112 - INFO - Processed 116300000 reads so far
2011-05-20 09:09:36,712 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7:146352004-166372004
2011-05-20 09:09:45,526 - INFO - Processed 116400000 reads so far
2011-05-20 09:09:59,101 - INFO - Processed 116500000 reads so far
2011-05-20 09:10:11,793 - INFO - Processed 116600000 reads so far
2011-05-20 09:10:16,800 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr7_random:0-20010161
2011-05-20 09:10:18,243 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:2990015-23010015
2011-05-20 09:10:23,536 - INFO - Processed 116700000 reads so far
2011-05-20 09:10:35,002 - INFO - Processed 116800000 reads so far
2011-05-20 09:10:45,823 - INFO - Processed 116900000 reads so far
2011-05-20 09:10:56,503 - INFO - Processed 117000000 reads so far
2011-05-20 09:11:08,135 - INFO - Processed 117100000 reads so far
2011-05-20 09:11:16,710 - INFO - Processed 117200000 reads so far
2011-05-20 09:11:28,179 - INFO - Processed 117300000 reads so far
2011-05-20 09:11:39,622 - INFO - Processed 117400000 reads so far
2011-05-20 09:11:52,613 - INFO - Processed 117500000 reads so far
2011-05-20 09:12:02,011 - INFO - Processed 117600000 reads so far
2011-05-20 09:12:11,022 - INFO - Processed 117700000 reads so far
2011-05-20 09:12:16,393 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:22990026-43010026
2011-05-20 09:12:21,763 - INFO - Processed 117800000 reads so far
2011-05-20 09:12:30,752 - INFO - Processed 117900000 reads so far
2011-05-20 09:12:41,939 - INFO - Processed 118000000 reads so far
2011-05-20 09:12:53,378 - INFO - Processed 118100000 reads so far
2011-05-20 09:13:05,032 - INFO - Processed 118200000 reads so far
2011-05-20 09:13:16,803 - INFO - Processed 118300000 reads so far
2011-05-20 09:13:30,158 - INFO - Processed 118400000 reads so far
2011-05-20 09:13:38,865 - INFO - Processed 118500000 reads so far
2011-05-20 09:13:47,516 - INFO - Processed 118600000 reads so far
2011-05-20 09:13:55,981 - INFO - Processed 118700000 reads so far
2011-05-20 09:14:01,505 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:42990064-63010064
2011-05-20 09:14:06,150 - INFO - Processed 118800000 reads so far
2011-05-20 09:14:17,319 - INFO - Processed 118900000 reads so far
2011-05-20 09:14:27,923 - INFO - Processed 119000000 reads so far
2011-05-20 09:14:37,055 - INFO - Processed 119100000 reads so far
2011-05-20 09:14:47,536 - INFO - Processed 119200000 reads so far
2011-05-20 09:14:56,196 - INFO - Processed 119300000 reads so far
2011-05-20 09:15:04,859 - INFO - Processed 119400000 reads so far
2011-05-20 09:15:14,964 - INFO - Processed 119500000 reads so far
2011-05-20 09:15:26,852 - INFO - Processed 119600000 reads so far
2011-05-20 09:15:29,290 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:62990091-83010091
2011-05-20 09:15:35,464 - INFO - Processed 119700000 reads so far
2011-05-20 09:15:45,418 - INFO - Processed 119800000 reads so far
2011-05-20 09:15:54,569 - INFO - Processed 119900000 reads so far
2011-05-20 09:16:04,961 - INFO - Processed 120000000 reads so far
2011-05-20 09:16:13,732 - INFO - Processed 120100000 reads so far
2011-05-20 09:16:29,581 - INFO - Processed 120200000 reads so far
2011-05-20 09:16:41,694 - INFO - Processed 120300000 reads so far
2011-05-20 09:16:52,286 - INFO - Processed 120400000 reads so far
2011-05-20 09:17:01,443 - INFO - Processed 120500000 reads so far
2011-05-20 09:17:12,155 - INFO - Processed 120600000 reads so far
2011-05-20 09:17:14,981 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:82990175-103010175
2011-05-20 09:17:21,031 - INFO - Processed 120700000 reads so far
2011-05-20 09:17:30,579 - INFO - Processed 120800000 reads so far
2011-05-20 09:17:41,333 - INFO - Processed 120900000 reads so far
2011-05-20 09:17:51,102 - INFO - Processed 121000000 reads so far
2011-05-20 09:17:59,657 - INFO - Processed 121100000 reads so far
2011-05-20 09:18:08,063 - INFO - Processed 121200000 reads so far
2011-05-20 09:18:19,713 - INFO - Processed 121300000 reads so far
2011-05-20 09:18:28,408 - INFO - Processed 121400000 reads so far
2011-05-20 09:18:36,350 - INFO - Processed 121500000 reads so far
2011-05-20 09:18:45,001 - INFO - Processed 121600000 reads so far
2011-05-20 09:18:49,232 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:102990193-123010193
2011-05-20 09:18:57,052 - INFO - Processed 121700000 reads so far
2011-05-20 09:19:05,555 - INFO - Processed 121800000 reads so far
2011-05-20 09:19:14,613 - INFO - Processed 121900000 reads so far
2011-05-20 09:19:22,879 - INFO - Processed 122000000 reads so far
2011-05-20 09:19:31,813 - INFO - Processed 122100000 reads so far
2011-05-20 09:19:40,619 - INFO - Processed 122200000 reads so far
2011-05-20 09:19:49,198 - INFO - Processed 122300000 reads so far
2011-05-20 09:19:58,643 - INFO - Processed 122400000 reads so far
2011-05-20 09:20:09,967 - INFO - Processed 122500000 reads so far
2011-05-20 09:20:23,324 - INFO - Processed 122600000 reads so far
2011-05-20 09:20:28,855 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8:122990201-143010201
2011-05-20 09:20:36,125 - INFO - Processed 122700000 reads so far
2011-05-20 09:20:48,021 - INFO - Processed 122800000 reads so far
2011-05-20 09:20:58,580 - INFO - Processed 122900000 reads so far
2011-05-20 09:21:09,624 - INFO - Processed 123000000 reads so far
2011-05-20 09:21:18,380 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr8_random:0-20010020
2011-05-20 09:21:19,129 - INFO - Processed 123100000 reads so far
2011-05-20 09:21:26,580 - INFO - Processed 123200000 reads so far
2011-05-20 09:21:28,997 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:2989988-23009988
2011-05-20 09:21:34,263 - INFO - Processed 123300000 reads so far
2011-05-20 09:21:41,507 - INFO - Processed 123400000 reads so far
2011-05-20 09:21:49,373 - INFO - Processed 123500000 reads so far
2011-05-20 09:21:56,502 - INFO - Processed 123600000 reads so far
2011-05-20 09:22:03,718 - INFO - Processed 123700000 reads so far
2011-05-20 09:22:13,483 - INFO - Processed 123800000 reads so far
2011-05-20 09:22:20,649 - INFO - Processed 123900000 reads so far
2011-05-20 09:22:28,662 - INFO - Processed 124000000 reads so far
2011-05-20 09:22:37,071 - INFO - Processed 124100000 reads so far
2011-05-20 09:22:44,506 - INFO - Processed 124200000 reads so far
2011-05-20 09:22:52,186 - INFO - Processed 124300000 reads so far
2011-05-20 09:22:59,294 - INFO - Processed 124400000 reads so far
2011-05-20 09:23:07,041 - INFO - Processed 124500000 reads so far
2011-05-20 09:23:14,755 - INFO - Processed 124600000 reads so far
2011-05-20 09:23:23,993 - INFO - Processed 124700000 reads so far
2011-05-20 09:23:32,770 - INFO - Processed 124800000 reads so far
2011-05-20 09:23:40,097 - INFO - Processed 124900000 reads so far
2011-05-20 09:23:46,941 - INFO - Processed 125000000 reads so far
2011-05-20 09:23:53,621 - INFO - Processed 125100000 reads so far
2011-05-20 09:24:01,557 - INFO - Processed 125200000 reads so far
2011-05-20 09:24:08,343 - INFO - Processed 125300000 reads so far
2011-05-20 09:24:15,761 - INFO - Processed 125400000 reads so far
2011-05-20 09:24:22,407 - INFO - Processed 125500000 reads so far
2011-05-20 09:24:30,315 - INFO - Processed 125600000 reads so far
2011-05-20 09:24:37,958 - INFO - Processed 125700000 reads so far
2011-05-20 09:24:46,353 - INFO - Processed 125800000 reads so far
2011-05-20 09:24:53,064 - INFO - Processed 125900000 reads so far
2011-05-20 09:25:00,644 - INFO - Processed 126000000 reads so far
2011-05-20 09:25:08,690 - INFO - Processed 126100000 reads so far
2011-05-20 09:25:20,178 - INFO - Processed 126200000 reads so far
2011-05-20 09:25:27,483 - INFO - Processed 126300000 reads so far
2011-05-20 09:25:34,286 - INFO - Processed 126400000 reads so far
2011-05-20 09:25:42,661 - INFO - Processed 126500000 reads so far
2011-05-20 09:25:51,600 - INFO - Processed 126600000 reads so far
2011-05-20 09:25:58,742 - INFO - Processed 126700000 reads so far
2011-05-20 09:26:07,870 - INFO - Processed 126800000 reads so far
2011-05-20 09:26:15,701 - INFO - Processed 126900000 reads so far
2011-05-20 09:26:23,321 - INFO - Processed 127000000 reads so far
2011-05-20 09:26:32,274 - INFO - Processed 127100000 reads so far
2011-05-20 09:26:41,883 - INFO - Processed 127200000 reads so far
2011-05-20 09:26:49,438 - INFO - Processed 127300000 reads so far
2011-05-20 09:26:57,727 - INFO - Processed 127400000 reads so far
2011-05-20 09:27:22,056 - INFO - Processed 127500000 reads so far
2011-05-20 09:27:47,470 - INFO - Processed 127600000 reads so far
2011-05-20 09:27:58,838 - INFO - Processed 127700000 reads so far
2011-05-20 09:28:08,103 - INFO - Processed 127800000 reads so far
2011-05-20 09:28:18,507 - INFO - Processed 127900000 reads so far
2011-05-20 09:28:25,524 - INFO - Processed 128000000 reads so far
2011-05-20 09:28:34,021 - INFO - Processed 128100000 reads so far
2011-05-20 09:28:44,533 - INFO - Processed 128200000 reads so far
2011-05-20 09:28:56,363 - INFO - Processed 128300000 reads so far
2011-05-20 09:29:06,634 - INFO - Processed 128400000 reads so far
2011-05-20 09:29:19,989 - INFO - Processed 128500000 reads so far
2011-05-20 09:29:28,351 - INFO - Processed 128600000 reads so far
2011-05-20 09:29:36,889 - INFO - Processed 128700000 reads so far
2011-05-20 09:29:47,752 - INFO - Processed 128800000 reads so far
2011-05-20 09:29:56,330 - INFO - Processed 128900000 reads so far
2011-05-20 09:30:07,245 - INFO - Processed 129000000 reads so far
2011-05-20 09:30:17,420 - INFO - Processed 129100000 reads so far
2011-05-20 09:30:24,673 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:22990009-43010009
2011-05-20 09:30:28,844 - INFO - Processed 129200000 reads so far
2011-05-20 09:30:39,431 - INFO - Processed 129300000 reads so far
2011-05-20 09:30:48,020 - INFO - Processed 129400000 reads so far
2011-05-20 09:30:59,136 - INFO - Processed 129500000 reads so far
2011-05-20 09:31:09,198 - INFO - Processed 129600000 reads so far
2011-05-20 09:31:19,154 - INFO - Processed 129700000 reads so far
2011-05-20 09:31:29,087 - INFO - Processed 129800000 reads so far
2011-05-20 09:31:40,063 - INFO - Processed 129900000 reads so far
2011-05-20 09:31:48,835 - INFO - Processed 130000000 reads so far
2011-05-20 09:31:56,730 - INFO - Processed 130100000 reads so far
2011-05-20 09:32:05,884 - INFO - Processed 130200000 reads so far
2011-05-20 09:32:13,246 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:42990017-63010017
2011-05-20 09:32:13,769 - INFO - Processed 130300000 reads so far
2011-05-20 09:32:24,035 - INFO - Processed 130400000 reads so far
2011-05-20 09:32:33,166 - INFO - Processed 130500000 reads so far
2011-05-20 09:32:42,574 - INFO - Processed 130600000 reads so far
2011-05-20 09:32:52,526 - INFO - Processed 130700000 reads so far
2011-05-20 09:33:01,587 - INFO - Processed 130800000 reads so far
2011-05-20 09:33:11,034 - INFO - Processed 130900000 reads so far
2011-05-20 09:33:21,756 - INFO - Processed 131000000 reads so far
2011-05-20 09:33:33,004 - INFO - Processed 131100000 reads so far
2011-05-20 09:33:44,595 - INFO - Processed 131200000 reads so far
2011-05-20 09:33:57,395 - INFO - Processed 131300000 reads so far
2011-05-20 09:34:00,042 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:62990027-83010027
2011-05-20 09:34:08,057 - INFO - Processed 131400000 reads so far
2011-05-20 09:34:17,890 - INFO - Processed 131500000 reads so far
2011-05-20 09:34:29,255 - INFO - Processed 131600000 reads so far
2011-05-20 09:34:38,887 - INFO - Processed 131700000 reads so far
2011-05-20 09:34:50,609 - INFO - Processed 131800000 reads so far
2011-05-20 09:35:01,248 - INFO - Processed 131900000 reads so far
2011-05-20 09:35:09,595 - INFO - Processed 132000000 reads so far
2011-05-20 09:35:17,995 - INFO - Processed 132100000 reads so far
2011-05-20 09:35:27,859 - INFO - Processed 132200000 reads so far
2011-05-20 09:35:38,704 - INFO - Processed 132300000 reads so far
2011-05-20 09:35:42,162 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:82990031-103010031
2011-05-20 09:35:48,207 - INFO - Processed 132400000 reads so far
2011-05-20 09:35:59,218 - INFO - Processed 132500000 reads so far
2011-05-20 09:36:08,783 - INFO - Processed 132600000 reads so far
2011-05-20 09:36:16,945 - INFO - Processed 132700000 reads so far
2011-05-20 09:36:27,251 - INFO - Processed 132800000 reads so far
2011-05-20 09:36:36,734 - INFO - Processed 132900000 reads so far
2011-05-20 09:36:45,662 - INFO - Processed 133000000 reads so far
2011-05-20 09:36:54,445 - INFO - Processed 133100000 reads so far
2011-05-20 09:37:03,028 - INFO - Processed 133200000 reads so far
2011-05-20 09:37:13,864 - INFO - Processed 133300000 reads so far
2011-05-20 09:37:19,009 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:102990038-123010038
2011-05-20 09:37:23,024 - INFO - Processed 133400000 reads so far
2011-05-20 09:37:37,375 - INFO - Processed 133500000 reads so far
2011-05-20 09:37:49,253 - INFO - Processed 133600000 reads so far
2011-05-20 09:38:01,761 - INFO - Processed 133700000 reads so far
2011-05-20 09:38:11,812 - INFO - Processed 133800000 reads so far
2011-05-20 09:38:22,709 - INFO - Processed 133900000 reads so far
2011-05-20 09:38:33,598 - INFO - Processed 134000000 reads so far
2011-05-20 09:38:42,289 - INFO - Processed 134100000 reads so far
2011-05-20 09:38:54,741 - INFO - Processed 134200000 reads so far
2011-05-20 09:39:08,622 - INFO - Processed 134300000 reads so far
2011-05-20 09:39:20,415 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9:122990090-143010090
2011-05-20 09:39:22,218 - INFO - Processed 134400000 reads so far
2011-05-20 09:39:26,545 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chr9_random:0-20010017
2011-05-20 09:39:29,296 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrM:0-20010000
2011-05-20 09:39:32,236 - INFO - Processed 134500000 reads so far
2011-05-20 09:39:38,818 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrUn_random:0-20010000
2011-05-20 09:39:39,536 - INFO - Processed 134600000 reads so far
2011-05-20 09:39:48,468 - INFO - Processed 134700000 reads so far
2011-05-20 09:39:58,624 - INFO - Processed 134800000 reads so far
2011-05-20 09:40:06,245 - INFO - Processed 134900000 reads so far
2011-05-20 09:40:10,055 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:2990012-23010012
2011-05-20 09:40:14,336 - INFO - Processed 135000000 reads so far
2011-05-20 09:40:22,689 - INFO - Processed 135100000 reads so far
2011-05-20 09:40:30,247 - INFO - Processed 135200000 reads so far
2011-05-20 09:40:38,152 - INFO - Processed 135300000 reads so far
2011-05-20 09:40:49,040 - INFO - Processed 135400000 reads so far
2011-05-20 09:40:57,771 - INFO - Processed 135500000 reads so far
2011-05-20 09:41:06,656 - INFO - Processed 135600000 reads so far
2011-05-20 09:41:17,257 - INFO - Processed 135700000 reads so far
2011-05-20 09:41:26,157 - INFO - Processed 135800000 reads so far
2011-05-20 09:41:34,761 - INFO - Processed 135900000 reads so far
2011-05-20 09:41:43,726 - INFO - Processed 136000000 reads so far
2011-05-20 09:41:54,918 - INFO - Processed 136100000 reads so far
2011-05-20 09:42:04,184 - INFO - Processed 136200000 reads so far
2011-05-20 09:42:04,623 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:22990024-43010024
2011-05-20 09:42:12,503 - INFO - Processed 136300000 reads so far
2011-05-20 09:42:21,278 - INFO - Processed 136400000 reads so far
2011-05-20 09:42:30,712 - INFO - Processed 136500000 reads so far
2011-05-20 09:42:39,462 - INFO - Processed 136600000 reads so far
2011-05-20 09:42:46,929 - INFO - Processed 136700000 reads so far
2011-05-20 09:42:57,199 - INFO - Processed 136800000 reads so far
2011-05-20 09:43:05,267 - INFO - Processed 136900000 reads so far
2011-05-20 09:43:12,251 - INFO - Processed 137000000 reads so far
2011-05-20 09:43:22,659 - INFO - Processed 137100000 reads so far
2011-05-20 09:43:32,373 - INFO - Processed 137200000 reads so far
2011-05-20 09:43:42,981 - INFO - Processed 137300000 reads so far
2011-05-20 09:43:52,648 - INFO - Processed 137400000 reads so far
2011-05-20 09:43:59,871 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:42990027-63010027
2011-05-20 09:44:01,656 - INFO - Processed 137500000 reads so far
2011-05-20 09:44:11,903 - INFO - Processed 137600000 reads so far
2011-05-20 09:44:20,723 - INFO - Processed 137700000 reads so far
2011-05-20 09:44:29,157 - INFO - Processed 137800000 reads so far
2011-05-20 09:44:38,468 - INFO - Processed 137900000 reads so far
2011-05-20 09:44:48,116 - INFO - Processed 138000000 reads so far
2011-05-20 09:44:57,660 - INFO - Processed 138100000 reads so far
2011-05-20 09:45:07,066 - INFO - Processed 138200000 reads so far
2011-05-20 09:45:15,975 - INFO - Processed 138300000 reads so far
2011-05-20 09:45:26,495 - INFO - Processed 138400000 reads so far
2011-05-20 09:45:32,400 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:62990048-83010048
2011-05-20 09:45:45,885 - INFO - Processed 138500000 reads so far
2011-05-20 09:46:02,248 - INFO - Processed 138600000 reads so far
2011-05-20 09:46:13,206 - INFO - Processed 138700000 reads so far
2011-05-20 09:46:25,857 - INFO - Processed 138800000 reads so far
2011-05-20 09:46:38,420 - INFO - Processed 138900000 reads so far
2011-05-20 09:46:50,919 - INFO - Processed 139000000 reads so far
2011-05-20 09:47:01,809 - INFO - Processed 139100000 reads so far
2011-05-20 09:47:12,345 - INFO - Processed 139200000 reads so far
2011-05-20 09:47:24,750 - INFO - Processed 139300000 reads so far
2011-05-20 09:47:36,229 - INFO - Processed 139400000 reads so far
2011-05-20 09:47:40,241 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:82990059-103010059
2011-05-20 09:47:47,749 - INFO - Processed 139500000 reads so far
2011-05-20 09:47:59,267 - INFO - Processed 139600000 reads so far
2011-05-20 09:48:10,119 - INFO - Processed 139700000 reads so far
2011-05-20 09:48:18,562 - INFO - Processed 139800000 reads so far
2011-05-20 09:48:27,858 - INFO - Processed 139900000 reads so far
2011-05-20 09:48:36,478 - INFO - Processed 140000000 reads so far
2011-05-20 09:48:45,254 - INFO - Processed 140100000 reads so far
2011-05-20 09:48:55,021 - INFO - Processed 140200000 reads so far
2011-05-20 09:49:06,035 - INFO - Processed 140300000 reads so far
2011-05-20 09:49:15,818 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:102990087-123010087
2011-05-20 09:49:16,204 - INFO - Processed 140400000 reads so far
2011-05-20 09:49:24,420 - INFO - Processed 140500000 reads so far
2011-05-20 09:49:33,253 - INFO - Processed 140600000 reads so far
2011-05-20 09:49:42,660 - INFO - Processed 140700000 reads so far
2011-05-20 09:49:54,050 - INFO - Processed 140800000 reads so far
2011-05-20 09:50:07,144 - INFO - Processed 140900000 reads so far
2011-05-20 09:50:18,408 - INFO - Processed 141000000 reads so far
2011-05-20 09:50:30,213 - INFO - Processed 141100000 reads so far
2011-05-20 09:50:42,513 - INFO - Processed 141200000 reads so far
2011-05-20 09:50:54,149 - INFO - Processed 141300000 reads so far
2011-05-20 09:50:54,161 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:122990115-143010115
2011-05-20 09:51:03,622 - INFO - Processed 141400000 reads so far
2011-05-20 09:51:14,447 - INFO - Processed 141500000 reads so far
2011-05-20 09:51:25,152 - INFO - Processed 141600000 reads so far
2011-05-20 09:51:35,642 - INFO - Processed 141700000 reads so far
2011-05-20 09:51:45,276 - INFO - Processed 141800000 reads so far
2011-05-20 09:51:55,879 - INFO - Processed 141900000 reads so far
2011-05-20 09:52:06,305 - INFO - Processed 142000000 reads so far
2011-05-20 09:52:17,757 - INFO - Processed 142100000 reads so far
2011-05-20 09:52:28,075 - INFO - Processed 142200000 reads so far
2011-05-20 09:52:39,507 - INFO - Processed 142300000 reads so far
2011-05-20 09:52:42,268 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:142990128-163010128
2011-05-20 09:52:53,217 - INFO - Processed 142400000 reads so far
2011-05-20 09:53:04,754 - INFO - Processed 142500000 reads so far
2011-05-20 09:53:17,336 - INFO - Processed 142600000 reads so far
2011-05-20 09:53:28,480 - INFO - Processed 142700000 reads so far
2011-05-20 09:53:39,934 - INFO - Processed 142800000 reads so far
2011-05-20 09:53:52,158 - INFO - Processed 142900000 reads so far
2011-05-20 09:54:03,678 - INFO - Processed 143000000 reads so far
2011-05-20 09:54:14,884 - INFO - Processed 143100000 reads so far
2011-05-20 09:54:27,979 - INFO - Processed 143200000 reads so far
2011-05-20 09:54:32,815 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX:162990133-183010133
2011-05-20 09:54:40,359 - INFO - Processed 143300000 reads so far
2011-05-20 09:54:49,933 - INFO - Processed 143400000 reads so far
2011-05-20 09:54:57,388 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrX_random:0-20010000
2011-05-20 09:55:00,413 - INFO - Processed 143500000 reads so far
2011-05-20 09:55:03,990 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrY:0-20013928
2011-05-20 09:55:05,140 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrY_random:51117-20071117
2011-05-20 09:55:07,431 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrY_random:20157330-40177330
2011-05-20 09:55:08,847 - INFO - Constructing variant generator with minMapQ=0, minFlank=0, minBaseQual=5. Region = chrY_random:40171384-60191384
2011-05-20 09:55:10,597 - INFO - Processed 143600000 reads so far
2011-05-20 09:55:13,685 - INFO - Processed 143700000 reads so far
2011-05-20 09:55:17,959 - INFO - Processed 143800000 reads so far
2011-05-20 09:55:21,414 - INFO - Processed 143900000 reads so far
2011-05-20 09:55:25,881 - INFO - Processed 144000000 reads so far
2011-05-20 09:55:29,829 - INFO - Processed 144100000 reads so far
2011-05-20 09:55:33,575 - INFO - Processed 144200000 reads so far
2011-05-20 09:55:37,182 - INFO - Processed 144300000 reads so far
2011-05-20 09:55:41,551 - INFO - Processed 144400000 reads so far
2011-05-20 09:55:45,709 - INFO - Processed 144500000 reads so far
2011-05-20 09:55:49,784 - INFO - Processed 144600000 reads so far
2011-05-20 09:55:52,668 - INFO - Processed 144700000 reads so far
2011-05-20 09:55:56,679 - INFO - Processed 144800000 reads so far
2011-05-20 09:55:59,619 - INFO - Processed 144900000 reads so far
2011-05-20 09:56:03,995 - INFO - Processed 145000000 reads so far
2011-05-20 09:56:08,924 - INFO - Processed 145100000 reads so far
2011-05-20 09:56:13,311 - INFO - Processed 145200000 reads so far
2011-05-20 09:56:18,285 - INFO - Processed 145300000 reads so far
2011-05-20 09:56:20,889 - INFO - Processed 145400000 reads so far
2011-05-20 09:56:24,395 - INFO - Processed 145500000 reads so far
2011-05-20 09:56:27,996 - INFO - Processed 145600000 reads so far
2011-05-20 09:56:31,358 - INFO - Processed 145700000 reads so far
2011-05-20 09:56:31,892 - INFO - Finished loading data. Outputting QC metrics
2011-05-20 09:56:46,167 - INFO - Finished outputting QC metrics
2011-05-20 09:56:46,237 - INFO - Finished generating QC metrics