Info:    Log File: /projects/remc_bigdata/Karsan/HS1238_kd/saturation/20100713/HS1238_kd_hg18_noDups_ht3.log
Info:     * Output directory     : /projects/remc_bigdata/Karsan/HS1238_kd/saturation/20100713/
Info:     * Naming files as      : HS1238_kd_hg18_noDups_ht3
Info:     * MC Iterations        : 10
Info:     * Chr name prepend     : chr
Info:     * Min. reported pk ht  : 3
Info:     * Min. cov. allowed    : 0.0010
Info:     * Minimum ht to process: Off
Info:     * Lander-Waterman FDR  : Off
Info:     * Output Sequence      : Off
Info:     * Eff. fraction        : 0.7
Info:     * Control files in use : Off
Info:     * Compare files in use : Off
Info:     * Auto-threshold       : On
Info:     * Filter on PET flags  : Off
Info:     * Maximum PET frag size: Off
Info:     * Aligner              : maq
Info:     * Triangle dist.       : 100 low
Info:     * Triangle dist.       : 200 median
Info:     * Triangle dist.       : 300 high
Info:     * Maq file format      : 128bit reads (default value.  use -maq_read_size to override)
Info:     * One file per chr.    : Off
Info:     * Sub-peaks            : 0.2
Info:     * Trim-peaks           : 0.2
Info:     * Saturation Analysis  : On
Info:     * Wig step size        : 1
Info:     * Histogram length     : 40
Info:     * Histogram precision  : 1
Info:     * Peaks File Header    : On
Info:     * Min readahead window : Off
Info:     * Bedgraph/Wigfile     : wig file
Info:     * R mode               : Off
Info:     * Filter Duplicates    : On
Info:     * Filter quality min.  : On (10)
Info:     * Input Files          : 
Info:          /archive/solexa1_4/analysis2/HS1238/42F5NAAXX_2/maq/42F5NAAXX_2.map
Version: Initializing class Generic_AlignRead_Iterator        $Revision: 1600 $
Version: Initializing class MAQmapIterator                    $Revision: 1790 $
Info:    number of mapped reads in header: 16316102
Info:    Running Peak Processor
Version: Initializing class PeakDataSet Peak Locator          $Revision: 2226 $
Version: Initializing class Starting Saturation Data Holder   $Revision: 1423 $
Version: Initializing class PeakStore                         $Revision: 1335 $
Version: Initializing class MapStore                          $Revision: 1335 $
Info:    Current chromosome : 1
Info:    Reads used: 1237403
Info:    Reads filtered by duplicate: 58775
Info:    Reads filtered by iterator: 352936
Info:    Reads used by child (threshold 0.1): 123937
Info:    Reads used by child (threshold 0.1): 124511
Info:    Reads used by child (threshold 0.1): 123799
Info:    Reads used by child (threshold 0.2): 247345
Info:    Reads used by child (threshold 0.2): 248502
Info:    Reads used by child (threshold 0.2): 247592
Info:    Reads used by child (threshold 0.3): 371198
Info:    Reads used by child (threshold 0.3): 372458
Info:    Reads used by child (threshold 0.3): 370989
Info:    Reads used by child (threshold 0.4): 495063
Info:    Reads used by child (threshold 0.4): 496619
Info:    Reads used by child (threshold 0.4): 494455
Info:    Reads used by child (threshold 0.5): 618823
Info:    Reads used by child (threshold 0.5): 620365
Info:    Reads used by child (threshold 0.5): 618370
Info:    Reads used by child (threshold 0.6): 742562
Info:    Reads used by child (threshold 0.6): 743346
Info:    Reads used by child (threshold 0.6): 742007
Info:    Reads used by child (threshold 0.7): 866354
Info:    Reads used by child (threshold 0.7): 867066
Info:    Reads used by child (threshold 0.7): 866164
Info:    Reads used by child (threshold 0.8): 989998
Info:    Reads used by child (threshold 0.8): 990716
Info:    Reads used by child (threshold 0.8): 989636
Info:    Reads used by child (threshold 0.9): 1113774
Info:    Reads used by child (threshold 0.9): 1113816
Info:    Reads used by child (threshold 0.9): 1113663
Version: Initializing class PeakStats                         $Revision: 1335 $
Version: Initializing class Histogram                         $Revision: 1197 $
Info:    Performing Saturation Analysis
Version: Initializing class MC_Simulation                     $Revision: 1548 $
Info:    
Info:    ------------------------------------------------------------------------
Info:    Chromosome 1 Statistics
Info:    Estimated Chromosome Size :  247,199,411
Info:    Using Effective chr size of 0.7 * estimated size : 173,039,584
Info:    Observed Coverage         : 24,835,222
Info:    Generating random reads in batches of : 24,835
Info:    ------------------------------------------------------------------------
Info:    Performing Simulations.
Info:    1
Version: Initializing class RandomAlignedReadGenerator        $Revision: 1831 $
Info:    Reads used: 24834
Info:    Reads filtered by duplicate: 1
Info:    Reads used: 49666
Info:    Reads filtered by duplicate: 4
Info:    Reads used: 74494
Info:    Reads filtered by duplicate: 11
Info:    Reads used: 99320
Info:    Reads filtered by duplicate: 20
Info:    2
Info:    Reads used: 24834
Info:    Reads filtered by duplicate: 1
Info:    Reads used: 49667
Info:    Reads filtered by duplicate: 3
Info:    Reads used: 74497
Info:    Reads filtered by duplicate: 8
Info:    Reads used: 99331
Info:    Reads filtered by duplicate: 9
Info:    3
Info:    Reads used: 24835
Info:    Reads used: 49666
Info:    Reads filtered by duplicate: 4
Info:    Reads used: 74496
Info:    Reads filtered by duplicate: 9
Info:    Reads used: 99326
Info:    Reads filtered by duplicate: 14
Info:    4
Info:    Reads used: 24832
Info:    Reads filtered by duplicate: 3
Info:    Reads used: 49664
Info:    Reads filtered by duplicate: 6
Info:    Reads used: 74492
Info:    Reads filtered by duplicate: 13
Info:    Reads used: 99319
Info:    Reads filtered by duplicate: 21
Info:    5
Info:    Reads used: 24834
Info:    Reads filtered by duplicate: 1
Info:    Reads used: 49665
Info:    Reads filtered by duplicate: 5
Info:    Reads used: 74497
Info:    Reads filtered by duplicate: 8
Info:    Reads used: 99326
Info:    Reads filtered by duplicate: 14
Info:    6
Info:    Reads used: 24833
Info:    Reads filtered by duplicate: 2
Info:    Reads used: 49666
Info:    Reads filtered by duplicate: 4
Info:    Reads used: 74497
Info:    Reads filtered by duplicate: 8
Info:    Reads used: 99324
Info:    Reads filtered by duplicate: 16
Info:    7
Info:    Reads used: 24835
Info:    Reads used: 49666
Info:    Reads filtered by duplicate: 4
Info:    Reads used: 74497
Info:    Reads filtered by duplicate: 8
Info:    Reads used: 99325
Info:    Reads filtered by duplicate: 15
Info:    8
Info:    Reads used: 24834
Info:    Reads filtered by duplicate: 1
Info:    Reads used: 49667
Info:    Reads filtered by duplicate: 3
Info:    Reads used: 74498
Info:    Reads filtered by duplicate: 7
Info:    Reads used: 99330
Info:    Reads filtered by duplicate: 10
Info:    9
Info:    Reads used: 24834
Info:    Reads filtered by duplicate: 1
Info:    Reads used: 49666
Info:    Reads filtered by duplicate: 4
Info:    Reads used: 74498
Info:    Reads filtered by duplicate: 7
Info:    Reads used: 99325
Info:    Reads filtered by duplicate: 15
Info:    0
Info:    Reads used: 24834
Info:    Reads filtered by duplicate: 1
Info:    Reads used: 49668
Info:    Reads filtered by duplicate: 2
Info:    Reads used: 74499
Info:    Reads filtered by duplicate: 6
Info:    Reads used: 99327
Info:    Reads filtered by duplicate: 13
Version: Initializing class Apply Control                     $Revision: 1342 $
Info:    Ratio of 1s: 0.7633869803388679
Info:    Ratio of 2s: 1.4583858764186632
Info:    Average: 1.1108864283787656
Info:    Bin	Value	sample	control	n.control	difference
Info:    0	0.0	0	0	0.0	0.0
Info:    1	1.0	86311	80959	89936.25	-3625.25
Info:    2	2.0	8428	5134	5703.29	2724.71
Info:    3	3.0	1132	142	157.75	974.25
Info:    4	4.0	282	4	4.44	277.56
Info:    5	5.0	91	0	0.0	91.0
Info:    6	6.0	28	0	0.0	28.0
Info:    7	7.0	14	0	0.0	14.0
Info:    8	8.0	2	0	0.0	2.0
Info:    9	9.0	1	0	0.0	1.0
Info:    10	10.0	2	0	0.0	2.0
Info:    11	11.0	0	0	0.0	0.0
Info:    12	12.0	0	0	0.0	0.0
Info:    13	13.0	0	0	0.0	0.0
Info:    14	14.0	0	0	0.0	0.0
Info:    15	15.0	0	0	0.0	0.0
Info:    16	16.0	0	0	0.0	0.0
Info:    17	17.0	0	0	0.0	0.0
Info:    18	18.0	0	0	0.0	0.0
Info:    19	19.0	0	0	0.0	0.0
Info:    20	20.0	0	0	0.0	0.0
Info:    21	21.0	0	0	0.0	0.0
Info:    22	22.0	0	0	0.0	0.0
Info:    23	23.0	0	0	0.0	0.0
Info:    24	24.0	0	0	0.0	0.0
Info:    25	25.0	0	0	0.0	0.0
Info:    26	26.0	0	0	0.0	0.0
Info:    27	27.0	0	0	0.0	0.0
Info:    28	28.0	0	0	0.0	0.0
Info:    29	29.0	0	0	0.0	0.0
Info:    30	30.0	0	0	0.0	0.0
Info:    31	31.0	0	0	0.0	0.0
Info:    32	32.0	0	0	0.0	0.0
Info:    33	33.0	0	0	0.0	0.0
Info:    34	34.0	0	0	0.0	0.0
Info:    35	35.0	0	0	0.0	0.0
Info:    36	36.0	0	0	0.0	0.0
Info:    37	37.0	0	0	0.0	0.0
Info:    38	38.0	0	0	0.0	0.0
Info:    39	39.0	0	0	0.0	0.0
Info:    40	40.0	1	0	0.0	1.0
Info:    Autothreshold for this chromosome is 5
Info:    Ratio of 1s: 0.7689923138986794
Info:    Ratio of 2s: 1.4526211493424608
Info:    Average: 1.11080673162057
Info:    Bin	Value	sample	control	n.control	difference
Info:    0	0.0	0	0	0.0	0.0
Info:    1	1.0	86496	80959	89929.80	-3433.80
Info:    2	2.0	8592	5134	5702.88	2889.12
Info:    3	3.0	1205	142	157.73	1047.27
Info:    4	4.0	276	4	4.44	271.56
Info:    5	5.0	84	0	0.0	84.0
Info:    6	6.0	32	0	0.0	32.0
Info:    7	7.0	4	0	0.0	4.0
Info:    8	8.0	4	0	0.0	4.0
Info:    9	9.0	0	0	0.0	0.0
Info:    10	10.0	0	0	0.0	0.0
Info:    11	11.0	0	0	0.0	0.0
Info:    12	12.0	0	0	0.0	0.0
Info:    13	13.0	0	0	0.0	0.0
Info:    14	14.0	0	0	0.0	0.0
Info:    15	15.0	0	0	0.0	0.0
Info:    16	16.0	0	0	0.0	0.0
Info:    17	17.0	0	0	0.0	0.0
Info:    18	18.0	0	0	0.0	0.0
Info:    19	19.0	0	0	0.0	0.0
Info:    20	20.0	0	0	0.0	0.0
Info:    21	21.0	0	0	0.0	0.0
Info:    22	22.0	0	0	0.0	0.0
Info:    23	23.0	0	0	0.0	0.0
Info:    24	24.0	0	0	0.0	0.0
Info:    25	25.0	0	0	0.0	0.0
Info:    26	26.0	0	0	0.0	0.0
Info:    27	27.0	0	0	0.0	0.0
Info:    28	28.0	0	0	0.0	0.0
Info:    29	29.0	0	0	0.0	0.0
Info:    30	30.0	0	0	0.0	0.0
Info:    31	31.0	0	0	0.0	0.0
Info:    32	32.0	0	0	0.0	0.0
Info:    33	33.0	0	0	0.0	0.0
Info:    34	34.0	0	0	0.0	0.0
Info:    35	35.0	0	0	0.0	0.0
Info:    36	36.0	0	0	0.0	0.0
Info:    37	37.0	0	0	0.0	0.0
Info:    38	38.0	0	0	0.0	0.0
Info:    39	39.0	0	0	0.0	0.0
Info:    40	40.0	0	0	0.0	0.0
Info:    Autothreshold for this chromosome is 5
Info:    Ratio of 1s: 0.7626792362025281
Info:    Ratio of 2s: 1.4415420644928842
Info:    Average: 1.102110650347706
Info:    Bin	Value	sample	control	n.control	difference
Info:    0	0.0	0	0	0.0	0.0
Info:    1	1.0	86162	80959	89225.78	-3063.78
Info:    2	2.0	8402	5134	5658.24	2743.76
Info:    3	3.0	1150	142	156.50	993.50
Info:    4	4.0	300	4	4.41	295.59
Info:    5	5.0	78	0	0.0	78.0
Info:    6	6.0	26	0	0.0	26.0
Info:    7	7.0	4	0	0.0	4.0
Info:    8	8.0	3	0	0.0	3.0
Info:    9	9.0	3	0	0.0	3.0
Info:    10	10.0	1	0	0.0	1.0
Info:    11	11.0	2	0	0.0	2.0
Info:    12	12.0	0	0	0.0	0.0
Info:    13	13.0	0	0	0.0	0.0
Info:    14	14.0	0	0	0.0	0.0
Info:    15	15.0	0	0	0.0	0.0
Info:    16	16.0	0	0	0.0	0.0
Info:    17	17.0	0	0	0.0	0.0
Info:    18	18.0	0	0	0.0	0.0
Info:    19	19.0	0	0	0.0	0.0
Info:    20	20.0	0	0	0.0	0.0
Info:    21	21.0	0	0	0.0	0.0
Info:    22	22.0	0	0	0.0	0.0
Info:    23	23.0	0	0	0.0	0.0
Info:    24	24.0	0	0	0.0	0.0
Info:    25	25.0	0	0	0.0	0.0
Info:    26	26.0	0	0	0.0	0.0
Info:    27	27.0	0	0	0.0	0.0
Info:    28	28.0	0	0	0.0	0.0
Info:    29	29.0	0	0	0.0	0.0
Info:    30	30.0	0	0	0.0	0.0
Info:    31	31.0	0	0	0.0	0.0
Info:    32	32.0	0	0	0.0	0.0
Info:    33	33.0	0	0	0.0	0.0
Info:    34	34.0	1	0	0.0	1.0
Info:    35	35.0	0	0	0.0	0.0
Info:    36	36.0	0	0	0.0	0.0
Info:    37	37.0	0	0	0.0	0.0
Info:    38	38.0	0	0	0.0	0.0
Info:    39	39.0	0	0	0.0	0.0
Info:    40	40.0	0	0	0.0	0.0
Info:    Autothreshold for this chromosome is 5
Info:    Ratio of 1s: 0.7597734668864375
Info:    Ratio of 2s: 1.4707057861749477
Info:    Average: 1.1152396265306925
Info:    Bin	Value	sample	control	n.control	difference
Info:    0	0.0	0	0	0.0	0.0
Info:    1	1.0	86311	81274	90639.99	-4328.99
Info:    2	2.0	8428	4984	5558.35	2869.65
Info:    3	3.0	1132	139	155.02	976.98
Info:    4	4.0	282	0	0.0	282.0
Info:    5	5.0	91	0	0.0	91.0
Info:    6	6.0	28	0	0.0	28.0
Info:    7	7.0	14	0	0.0	14.0
Info:    8	8.0	2	0	0.0	2.0
Info:    9	9.0	1	0	0.0	1.0
Info:    10	10.0	2	0	0.0	2.0
Info:    11	11.0	0	0	0.0	0.0
Info:    12	12.0	0	0	0.0	0.0
Info:    13	13.0	0	0	0.0	0.0
Info:    14	14.0	0	0	0.0	0.0
Info:    15	15.0	0	0	0.0	0.0
Info:    16	16.0	0	0	0.0	0.0
Info:    17	17.0	0	0	0.0	0.0
Info:    18	18.0	0	0	0.0	0.0
Info:    19	19.0	0	0	0.0	0.0
Info:    20	20.0	0	0	0.0	0.0
Info:    21	21.0	0	0	0.0	0.0
Info:    22	22.0	0	0	0.0	0.0
Info:    23	23.0	0	0	0.0	0.0
Info:    24	24.0	0	0	0.0	0.0
Info:    25	25.0	0	0	0.0	0.0
Info:    26	26.0	0	0	0.0	0.0
Info:    27	27.0	0	0	0.0	0.0
Info:    28	28.0	0	0	0.0	0.0
Info:    29	29.0	0	0	0.0	0.0
Info:    30	30.0	0	0	0.0	0.0
Info:    31	31.0	0	0	0.0	0.0
Info:    32	32.0	0	0	0.0	0.0
Info:    33	33.0	0	0	0.0	0.0
Info:    34	34.0	0	0	0.0	0.0
Info:    35	35.0	0	0	0.0	0.0
Info:    36	36.0	0	0	0.0	0.0
Info:    37	37.0	0	0	0.0	0.0
Info:    38	38.0	0	0	0.0	0.0
Info:    39	39.0	0	0	0.0	0.0
Info:    40	40.0	1	0	0.0	1.0
Info:    Autothreshold for this chromosome is 4
Info:    Ratio of 1s: 0.7653522674443176
Info:    Ratio of 2s: 1.4648923607957125
Info:    Average: 1.115122314120015
Info:    Bin	Value	sample	control	n.control	difference
Info:    0	0.0	0	0	0.0	0.0
Info:    1	1.0	86496	81274	90630.45	-4134.45
Info:    2	2.0	8592	4984	5557.77	3034.23
Info:    3	3.0	1205	139	155.00	1050.00
Info:    4	4.0	276	0	0.0	276.0
Info:    5	5.0	84	0	0.0	84.0
Info:    6	6.0	32	0	0.0	32.0
Info:    7	7.0	4	0	0.0	4.0
Info:    8	8.0	4	0	0.0	4.0
Info:    9	9.0	0	0	0.0	0.0
Info:    10	10.0	0	0	0.0	0.0
Info:    11	11.0	0	0	0.0	0.0
Info:    12	12.0	0	0	0.0	0.0
Info:    13	13.0	0	0	0.0	0.0
Info:    14	14.0	0	0	0.0	0.0
Info:    15	15.0	0	0	0.0	0.0
Info:    16	16.0	0	0	0.0	0.0
Info:    17	17.0	0	0	0.0	0.0
Info:    18	18.0	0	0	0.0	0.0
Info:    19	19.0	0	0	0.0	0.0
Info:    20	20.0	0	0	0.0	0.0
Info:    21	21.0	0	0	0.0	0.0
Info:    22	22.0	0	0	0.0	0.0
Info:    23	23.0	0	0	0.0	0.0
Info:    24	24.0	0	0	0.0	0.0
Info:    25	25.0	0	0	0.0	0.0
Info:    26	26.0	0	0	0.0	0.0
Info:    27	27.0	0	0	0.0	0.0
Info:    28	28.0	0	0	0.0	0.0
Info:    29	29.0	0	0	0.0	0.0
Info:    30	30.0	0	0	0.0	0.0
Info:    31	31.0	0	0	0.0	0.0
Info:    32	32.0	0	0	0.0	0.0
Info:    33	33.0	0	0	0.0	0.0
Info:    34	34.0	0	0	0.0	0.0
Info:    35	35.0	0	0	0.0	0.0
Info:    36	36.0	0	0	0.0	0.0
Info:    37	37.0	0	0	0.0	0.0
Info:    38	38.0	0	0	0.0	0.0
Info:    39	39.0	0	0	0.0	0.0
Info:    40	40.0	0	0	0.0	0.0
Info:    Autothreshold for this chromosome is 4
Info:    Ratio of 1s: 0.7590690728766043
Info:    Ratio of 2s: 1.453719683894995
Info:    Average: 1.1063943783857997
Info:    Bin	Value	sample	control	n.control	difference
Info:    0	0.0	0	0	0.0	0.0
Info:    1	1.0	86162	81274	89921.10	-3759.10
Info:    2	2.0	8402	4984	5514.27	2887.73
Info:    3	3.0	1150	139	153.79	996.21
Info:    4	4.0	300	0	0.0	300.0
Info:    5	5.0	78	0	0.0	78.0
Info:    6	6.0	26	0	0.0	26.0
Info:    7	7.0	4	0	0.0	4.0
Info:    8	8.0	3	0	0.0	3.0
Info:    9	9.0	3	0	0.0	3.0
Info:    10	10.0	1	0	0.0	1.0
Info:    11	11.0	2	0	0.0	2.0
Info:    12	12.0	0	0	0.0	0.0
Info:    13	13.0	0	0	0.0	0.0
Info:    14	14.0	0	0	0.0	0.0
Info:    15	15.0	0	0	0.0	0.0
Info:    16	16.0	0	0	0.0	0.0
Info:    17	17.0	0	0	0.0	0.0
Info:    18	18.0	0	0	0.0	0.0
Info:    19	19.0	0	0	0.0	0.0
Info:    20	20.0	0	0	0.0	0.0
Info:    21	21.0	0	0	0.0	0.0
Info:    22	22.0	0	0	0.0	0.0
Info:    23	23.0	0	0	0.0	0.0
Info:    24	24.0	0	0	0.0	0.0
Info:    25	25.0	0	0	0.0	0.0
Info:    26	26.0	0	0	0.0	0.0
Info:    27	27.0	0	0	0.0	0.0
Info:    28	28.0	0	0	0.0	0.0
Info:    29	29.0	0	0	0.0	0.0
Info:    30	30.0	0	0	0.0	0.0
Info:    31	31.0	0	0	0.0	0.0
Info:    32	32.0	0	0	0.0	0.0
Info:    33	33.0	0	0	0.0	0.0
Info:    34	34.0	1	0	0.0	1.0
Info:    35	35.0	0	0	0.0	0.0
Info:    36	36.0	0	0	0.0	0.0
Info:    37	37.0	0	0	0.0	0.0
Info:    38	38.0	0	0	0.0	0.0
Info:    39	39.0	0	0	0.0	0.0
Info:    40	40.0	0	0	0.0	0.0
Info:    Autothreshold for this chromosome is 4
Info:    Ratio of 1s: 0.7588327165791955
Info:    Ratio of 2s: 1.485821785812609
Info:    Average: 1.1223272511959022
Info:    Bin	Value	sample	control	n.control	difference
Info:    0	0.0	0	0	0.0	0.0
Info:    1	1.0	86311	81208	91141.95	-4830.95
Info:    2	2.0	8428	5026	5640.82	2787.18
Info:    3	3.0	1132	159	178.45	953.55
Info:    4	4.0	282	1	1.12	280.88
Info:    5	5.0	91	0	0.0	91.0
Info:    6	6.0	28	0	0.0	28.0
Info:    7	7.0	14	0	0.0	14.0
Info:    8	8.0	2	0	0.0	2.0
Info:    9	9.0	1	0	0.0	1.0
Info:    10	10.0	2	0	0.0	2.0
Info:    11	11.0	0	0	0.0	0.0
Info:    12	12.0	0	0	0.0	0.0
Info:    13	13.0	0	0	0.0	0.0
Info:    14	14.0	0	0	0.0	0.0
Info:    15	15.0	0	0	0.0	0.0
Info:    16	16.0	0	0	0.0	0.0
Info:    17	17.0	0	0	0.0	0.0
Info:    18	18.0	0	0	0.0	0.0
Info:    19	19.0	0	0	0.0	0.0
Info:    20	20.0	0	0	0.0	0.0
Info:    21	21.0	0	0	0.0	0.0
Info:    22	22.0	0	0	0.0	0.0
Info:    23	23.0	0	0	0.0	0.0
Info:    24	24.0	0	0	0.0	0.0
Info:    25	25.0	0	0	0.0	0.0
Info:    26	26.0	0	0	0.0	0.0
Info:    27	27.0	0	0	0.0	0.0
Info:    28	28.0	0	0	0.0	0.0
Info:    29	29.0	0	0	0.0	0.0
Info:    30	30.0	0	0	0.0	0.0
Info:    31	31.0	0	0	0.0	0.0
Info:    32	32.0	0	0	0.0	0.0
Info:    33	33.0	0	0	0.0	0.0
Info:    34	34.0	0	0	0.0	0.0
Info:    35	35.0	0	0	0.0	0.0
Info:    36	36.0	0	0	0.0	0.0
Info:    37	37.0	0	0	0.0	0.0
Info:    38	38.0	0	0	0.0	0.0
Info:    39	39.0	0	0	0.0	0.0
Info:    40	40.0	1	0	0.0	1.0
Info:    Autothreshold for this chromosome is 4
Info:    Ratio of 1s: 0.764404609475032
Info:    Ratio of 2s: 1.4799486097090941
Info:    Average: 1.1221766095920631
Info:    Bin	Value	sample	control	n.control	difference
Info:    0	0.0	0	0	0.0	0.0
Info:    1	1.0	86496	81208	91129.72	-4633.72
Info:    2	2.0	8592	5026	5640.06	2951.94
Info:    3	3.0	1205	159	178.43	1026.57
Info:    4	4.0	276	1	1.12	274.88
Info:    5	5.0	84	0	0.0	84.0
Info:    6	6.0	32	0	0.0	32.0
Info:    7	7.0	4	0	0.0	4.0
Info:    8	8.0	4	0	0.0	4.0
Info:    9	9.0	0	0	0.0	0.0
Info:    10	10.0	0	0	0.0	0.0
Info:    11	11.0	0	0	0.0	0.0
Info:    12	12.0	0	0	0.0	0.0
Info:    13	13.0	0	0	0.0	0.0
Info:    14	14.0	0	0	0.0	0.0
Info:    15	15.0	0	0	0.0	0.0
Info:    16	16.0	0	0	0.0	0.0
Info:    17	17.0	0	0	0.0	0.0
Info:    18	18.0	0	0	0.0	0.0
Info:    19	19.0	0	0	0.0	0.0
Info:    20	20.0	0	0	0.0	0.0
Info:    21	21.0	0	0	0.0	0.0
Info:    22	22.0	0	0	0.0	0.0
Info:    23	23.0	0	0	0.0	0.0
Info:    24	24.0	0	0	0.0	0.0
Info:    25	25.0	0	0	0.0	0.0
Info:    26	26.0	0	0	0.0	0.0
Info:    27	27.0	0	0	0.0	0.0
Info:    28	28.0	0	0	0.0	0.0
Info:    29	29.0	0	0	0.0	0.0
Info:    30	30.0	0	0	0.0	0.0
Info:    31	31.0	0	0	0.0	0.0
Info:    32	32.0	0	0	0.0	0.0
Info:    33	33.0	0	0	0.0	0.0
Info:    34	34.0	0	0	0.0	0.0
Info:    35	35.0	0	0	0.0	0.0
Info:    36	36.0	0	0	0.0	0.0
Info:    37	37.0	0	0	0.0	0.0
Info:    38	38.0	0	0	0.0	0.0
Info:    39	39.0	0	0	0.0	0.0
Info:    40	40.0	0	0	0.0	0.0
Info:    Autothreshold for this chromosome is 4
Info:    Ratio of 1s: 0.758129194748913
Info:    Ratio of 2s: 1.4686610993851519
Info:    Average: 1.1133951470670325
Info:    Bin	Value	sample	control	n.control	difference
Info:    0	0.0	0	0	0.0	0.0
Info:    1	1.0	86162	81208	90416.59	-4254.59
Info:    2	2.0	8402	5026	5595.92	2806.08
Info:    3	3.0	1150	159	177.03	972.97
Info:    4	4.0	300	1	1.11	298.89
Info:    5	5.0	78	0	0.0	78.0
Info:    6	6.0	26	0	0.0	26.0
Info:    7	7.0	4	0	0.0	4.0
Info:    8	8.0	3	0	0.0	3.0
Info:    9	9.0	3	0	0.0	3.0
Info:    10	10.0	1	0	0.0	1.0
Info:    11	11.0	2	0	0.0	2.0
Info:    12	12.0	0	0	0.0	0.0
Info:    13	13.0	0	0	0.0	0.0
Info:    14	14.0	0	0	0.0	0.0
Info:    15	15.0	0	0	0.0	0.0
Info:    16	16.0	0	0	0.0	0.0
Info:    17	17.0	0	0	0.0	0.0
Info:    18	18.0	0	0	0.0	0.0
Info:    19	19.0	0	0	0.0	0.0
Info:    20	20.0	0	0	0.0	0.0
Info:    21	21.0	0	0	0.0	0.0
Info:    22	22.0	0	0	0.0	0.0
Info:    23	23.0	0	0	0.0	0.0
Info:    24	24.0	0	0	0.0	0.0
Info:    25	25.0	0	0	0.0	0.0
Info:    26	26.0	0	0	0.0	0.0
Info:    27	27.0	0	0	0.0	0.0
Info:    28	28.0	0	0	0.0	0.0
Info:    29	29.0	0	0	0.0	0.0
Info:    30	30.0	0	0	0.0	0.0
Info:    31	31.0	0	0	0.0	0.0
Info:    32	32.0	0	0	0.0	0.0
Info:    33	33.0	0	0	0.0	0.0
Info:    34	34.0	1	0	0.0	1.0
Info:    35	35.0	0	0	0.0	0.0
Info:    36	36.0	0	0	0.0	0.0
Info:    37	37.0	0	0	0.0	0.0
Info:    38	38.0	0	0	0.0	0.0
Info:    39	39.0	0	0	0.0	0.0
Info:    40	40.0	0	0	0.0	0.0
Info:    Autothreshold for this chromosome is 4
Info:    Ratio of 1s: 0.7602768692906282
Info:    Ratio of 2s: 1.4693710863054723
Info:    Average: 1.1148239777980502
Info:    Bin	Value	sample	control	n.control	difference
Info:    0	0.0	0	0	0.0	0.0
Info:    1	1.0	86311	81112	90425.60	-4114.60
Info:    2	2.0	8428	5046	5625.40	2802.60
Info:    3	3.0	1132	180	200.67	931.33
Info:    4	4.0	282	1	1.11	280.89
Info:    5	5.0	91	0	0.0	91.0
Info:    6	6.0	28	0	0.0	28.0
Info:    7	7.0	14	0	0.0	14.0
Info:    8	8.0	2	0	0.0	2.0
Info:    9	9.0	1	0	0.0	1.0
Info:    10	10.0	2	0	0.0	2.0
Info:    11	11.0	0	0	0.0	0.0
Info:    12	12.0	0	0	0.0	0.0
Info:    13	13.0	0	0	0.0	0.0
Info:    14	14.0	0	0	0.0	0.0
Info:    15	15.0	0	0	0.0	0.0
Info:    16	16.0	0	0	0.0	0.0
Info:    17	17.0	0	0	0.0	0.0
Info:    18	18.0	0	0	0.0	0.0
Info:    19	19.0	0	0	0.0	0.0
Info:    20	20.0	0	0	0.0	0.0
Info:    21	21.0	0	0	0.0	0.0
Info:    22	22.0	0	0	0.0	0.0
Info:    23	23.0	0	0	0.0	0.0
Info:    24	24.0	0	0	0.0	0.0
Info:    25	25.0	0	0	0.0	0.0
Info:    26	26.0	0	0	0.0	0.0
Info:    27	27.0	0	0	0.0	0.0
Info:    28	28.0	0	0	0.0	0.0
Info:    29	29.0	0	0	0.0	0.0
Info:    30	30.0	0	0	0.0	0.0
Info:    31	31.0	0	0	0.0	0.0
Info:    32	32.0	0	0	0.0	0.0
Info:    33	33.0	0	0	0.0	0.0
Info:    34	34.0	0	0	0.0	0.0
Info:    35	35.0	0	0	0.0	0.0
Info:    36	36.0	0	0	0.0	0.0
Info:    37	37.0	0	0	0.0	0.0
Info:    38	38.0	0	0	0.0	0.0
Info:    39	39.0	0	0	0.0	0.0
Info:    40	40.0	1	0	0.0	1.0
Info:    Autothreshold for this chromosome is 4
Info:    Ratio of 1s: 0.765859366189241
Info:    Ratio of 2s: 1.463562936745621
Info:    Average: 1.114711151467431
Info:    Bin	Value	sample	control	n.control	difference
Info:    0	0.0	0	0	0.0	0.0
Info:    1	1.0	86496	81112	90416.45	-3920.45
Info:    2	2.0	8592	5046	5624.83	2967.17
Info:    3	3.0	1205	180	200.65	1004.35
Info:    4	4.0	276	1	1.11	274.89
Info:    5	5.0	84	0	0.0	84.0
Info:    6	6.0	32	0	0.0	32.0
Info:    7	7.0	4	0	0.0	4.0
Info:    8	8.0	4	0	0.0	4.0
Info:    9	9.0	0	0	0.0	0.0
Info:    10	10.0	0	0	0.0	0.0
Info:    11	11.0	0	0	0.0	0.0
Info:    12	12.0	0	0	0.0	0.0
Info:    13	13.0	0	0	0.0	0.0
Info:    14	14.0	0	0	0.0	0.0
Info:    15	15.0	0	0	0.0	0.0
Info:    16	16.0	0	0	0.0	0.0
Info:    17	17.0	0	0	0.0	0.0
Info:    18	18.0	0	0	0.0	0.0
Info:    19	19.0	0	0	0.0	0.0
Info:    20	20.0	0	0	0.0	0.0
Info:    21	21.0	0	0	0.0	0.0
Info:    22	22.0	0	0	0.0	0.0
Info:    23	23.0	0	0	0.0	0.0
Info:    24	24.0	0	0	0.0	0.0
Info:    25	25.0	0	0	0.0	0.0
Info:    26	26.0	0	0	0.0	0.0
Info:    27	27.0	0	0	0.0	0.0
Info:    28	28.0	0	0	0.0	0.0
Info:    29	29.0	0	0	0.0	0.0
Info:    30	30.0	0	0	0.0	0.0
Info:    31	31.0	0	0	0.0	0.0
Info:    32	32.0	0	0	0.0	0.0
Info:    33	33.0	0	0	0.0	0.0
Info:    34	34.0	0	0	0.0	0.0
Info:    35	35.0	0	0	0.0	0.0
Info:    36	36.0	0	0	0.0	0.0
Info:    37	37.0	0	0	0.0	0.0
Info:    38	38.0	0	0	0.0	0.0
Info:    39	39.0	0	0	0.0	0.0
Info:    40	40.0	0	0	0.0	0.0
Info:    Autothreshold for this chromosome is 4
Info:    Ratio of 1s: 0.7595720085711063
Info:    Ratio of 2s: 1.4524003993102823
Info:    Average: 1.1059862039406942
Info:    Bin	Value	sample	control	n.control	difference
Info:    0	0.0	0	0	0.0	0.0
Info:    1	1.0	86162	81112	89708.75	-3546.75
Info:    2	2.0	8402	5046	5580.81	2821.19
Info:    3	3.0	1150	180	199.08	950.92
Info:    4	4.0	300	1	1.11	298.89
Info:    5	5.0	78	0	0.0	78.0
Info:    6	6.0	26	0	0.0	26.0
Info:    7	7.0	4	0	0.0	4.0
Info:    8	8.0	3	0	0.0	3.0
Info:    9	9.0	3	0	0.0	3.0
Info:    10	10.0	1	0	0.0	1.0
Info:    11	11.0	2	0	0.0	2.0
Info:    12	12.0	0	0	0.0	0.0
Info:    13	13.0	0	0	0.0	0.0
Info:    14	14.0	0	0	0.0	0.0
Info:    15	15.0	0	0	0.0	0.0
Info:    16	16.0	0	0	0.0	0.0
Info:    17	17.0	0	0	0.0	0.0
Info:    18	18.0	0	0	0.0	0.0
Info:    19	19.0	0	0	0.0	0.0
Info:    20	20.0	0	0	0.0	0.0
Info:    21	21.0	0	0	0.0	0.0
Info:    22	22.0	0	0	0.0	0.0
Info:    23	23.0	0	0	0.0	0.0
Info:    24	24.0	0	0	0.0	0.0
Info:    25	25.0	0	0	0.0	0.0
Info:    26	26.0	0	0	0.0	0.0
Info:    27	27.0	0	0	0.0	0.0
Info:    28	28.0	0	0	0.0	0.0
Info:    29	29.0	0	0	0.0	0.0
Info:    30	30.0	0	0	0.0	0.0
Info:    31	31.0	0	0	0.0	0.0
Info:    32	32.0	0	0	0.0	0.0
Info:    33	33.0	0	0	0.0	0.0
Info:    34	34.0	1	0	0.0	1.0
Info:    35	35.0	0	0	0.0	0.0
Info:    36	36.0	0	0	0.0	0.0
Info:    37	37.0	0	0	0.0	0.0
Info:    38	38.0	0	0	0.0	0.0
Info:    39	39.0	0	0	0.0	0.0
Info:    40	40.0	0	0	0.0	0.0
Info:    Autothreshold for this chromosome is 4
Info:    Ratio of 1s: 0.7640033999150021
Info:    Ratio of 2s: 1.4564180984078439
Info:    Average: 1.110210749161423
Info:    Bin	Value	sample	control	n.control	difference
Info:    0	0.0	0	0	0.0	0.0
Info:    1	1.0	86311	80840	89749.44	-3438.44
Info:    2	2.0	8428	5202	5775.32	2652.68
Info:    3	3.0	1132	163	180.96	951.04
Info:    4	4.0	282	5	5.55	276.45
Info:    5	5.0	91	0	0.0	91.0
Info:    6	6.0	28	0	0.0	28.0
Info:    7	7.0	14	0	0.0	14.0
Info:    8	8.0	2	0	0.0	2.0
Info:    9	9.0	1	0	0.0	1.0
Info:    10	10.0	2	0	0.0	2.0
Info:    11	11.0	0	0	0.0	0.0
Info:    12	12.0	0	0	0.0	0.0
Info:    13	13.0	0	0	0.0	0.0
Info:    14	14.0	0	0	0.0	0.0
Info:    15	15.0	0	0	0.0	0.0
Info:    16	16.0	0	0	0.0	0.0
Info:    17	17.0	0	0	0.0	0.0
Info:    18	18.0	0	0	0.0	0.0
Info:    19	19.0	0	0	0.0	0.0
Info:    20	20.0	0	0	0.0	0.0
Info:    21	21.0	0	0	0.0	0.0
Info:    22	22.0	0	0	0.0	0.0
Info:    23	23.0	0	0	0.0	0.0
Info:    24	24.0	0	0	0.0	0.0
Info:    25	25.0	0	0	0.0	0.0
Info:    26	26.0	0	0	0.0	0.0
Info:    27	27.0	0	0	0.0	0.0
Info:    28	28.0	0	0	0.0	0.0
Info:    29	29.0	0	0	0.0	0.0
Info:    30	30.0	0	0	0.0	0.0
Info:    31	31.0	0	0	0.0	0.0
Info:    32	32.0	0	0	0.0	0.0
Info:    33	33.0	0	0	0.0	0.0
Info:    34	34.0	0	0	0.0	0.0
Info:    35	35.0	0	0	0.0	0.0
Info:    36	36.0	0	0	0.0	0.0
Info:    37	37.0	0	0	0.0	0.0
Info:    38	38.0	0	0	0.0	0.0
Info:    39	39.0	0	0	0.0	0.0
Info:    40	40.0	1	0	0.0	1.0
Info:    Autothreshold for this chromosome is 5
Info:    Ratio of 1s: 0.7696132596685082
Info:    Ratio of 2s: 1.450661149590717
Info:    Average: 1.1101372046296125
Info:    Bin	Value	sample	control	n.control	difference
Info:    0	0.0	0	0	0.0	0.0
Info:    1	1.0	86496	80840	89743.49	-3247.49
Info:    2	2.0	8592	5202	5774.93	2817.07
Info:    3	3.0	1205	163	180.95	1024.05
Info:    4	4.0	276	5	5.55	270.45
Info:    5	5.0	84	0	0.0	84.0
Info:    6	6.0	32	0	0.0	32.0
Info:    7	7.0	4	0	0.0	4.0
Info:    8	8.0	4	0	0.0	4.0
Info:    9	9.0	0	0	0.0	0.0
Info:    10	10.0	0	0	0.0	0.0
Info:    11	11.0	0	0	0.0	0.0
Info:    12	12.0	0	0	0.0	0.0
Info:    13	13.0	0	0	0.0	0.0
Info:    14	14.0	0	0	0.0	0.0
Info:    15	15.0	0	0	0.0	0.0
Info:    16	16.0	0	0	0.0	0.0
Info:    17	17.0	0	0	0.0	0.0
Info:    18	18.0	0	0	0.0	0.0
Info:    19	19.0	0	0	0.0	0.0
Info:    20	20.0	0	0	0.0	0.0
Info:    21	21.0	0	0	0.0	0.0
Info:    22	22.0	0	0	0.0	0.0
Info:    23	23.0	0	0	0.0	0.0
Info:    24	24.0	0	0	0.0	0.0
Info:    25	25.0	0	0	0.0	0.0
Info:    26	26.0	0	0	0.0	0.0
Info:    27	27.0	0	0	0.0	0.0
Info:    28	28.0	0	0	0.0	0.0
Info:    29	29.0	0	0	0.0	0.0
Info:    30	30.0	0	0	0.0	0.0
Info:    31	31.0	0	0	0.0	0.0
Info:    32	32.0	0	0	0.0	0.0
Info:    33	33.0	0	0	0.0	0.0
Info:    34	34.0	0	0	0.0	0.0
Info:    35	35.0	0	0	0.0	0.0
Info:    36	36.0	0	0	0.0	0.0
Info:    37	37.0	0	0	0.0	0.0
Info:    38	38.0	0	0	0.0	0.0
Info:    39	39.0	0	0	0.0	0.0
Info:    40	40.0	0	0	0.0	0.0
Info:    Autothreshold for this chromosome is 5
Info:    Ratio of 1s: 0.7632950842895594
Info:    Ratio of 2s: 1.4395970135828011
Info:    Average: 1.1014460489361801
Info:    Bin	Value	sample	control	n.control	difference
Info:    0	0.0	0	0	0.0	0.0
Info:    1	1.0	86162	80840	89040.90	-2878.90
Info:    2	2.0	8402	5202	5729.72	2672.28
Info:    3	3.0	1150	163	179.54	970.46
Info:    4	4.0	300	5	5.51	294.49
Info:    5	5.0	78	0	0.0	78.0
Info:    6	6.0	26	0	0.0	26.0
Info:    7	7.0	4	0	0.0	4.0
Info:    8	8.0	3	0	0.0	3.0
Info:    9	9.0	3	0	0.0	3.0
Info:    10	10.0	1	0	0.0	1.0
Info:    11	11.0	2	0	0.0	2.0
Info:    12	12.0	0	0	0.0	0.0
Info:    13	13.0	0	0	0.0	0.0
Info:    14	14.0	0	0	0.0	0.0
Info:    15	15.0	0	0	0.0	0.0
Info:    16	16.0	0	0	0.0	0.0
Info:    17	17.0	0	0	0.0	0.0
Info:    18	18.0	0	0	0.0	0.0
Info:    19	19.0	0	0	0.0	0.0
Info:    20	20.0	0	0	0.0	0.0
Info:    21	21.0	0	0	0.0	0.0
Info:    22	22.0	0	0	0.0	0.0
Info:    23	23.0	0	0	0.0	0.0
Info:    24	24.0	0	0	0.0	0.0
Info:    25	25.0	0	0	0.0	0.0
Info:    26	26.0	0	0	0.0	0.0
Info:    27	27.0	0	0	0.0	0.0
Info:    28	28.0	0	0	0.0	0.0
Info:    29	29.0	0	0	0.0	0.0
Info:    30	30.0	0	0	0.0	0.0
Info:    31	31.0	0	0	0.0	0.0
Info:    32	32.0	0	0	0.0	0.0
Info:    33	33.0	0	0	0.0	0.0
Info:    34	34.0	1	0	0.0	1.0
Info:    35	35.0	0	0	0.0	0.0
Info:    36	36.0	0	0	0.0	0.0
Info:    37	37.0	0	0	0.0	0.0
Info:    38	38.0	0	0	0.0	0.0
Info:    39	39.0	0	0	0.0	0.0
Info:    40	40.0	0	0	0.0	0.0
Info:    Autothreshold for this chromosome is 5
Info:    Ratio of 1s: 0.7644690773526869
Info:    Ratio of 2s: 1.4631303090547623
Info:    Average: 1.1137996932037246
Info:    Bin	Value	sample	control	n.control	difference
Info:    0	0.0	0	0	0.0	0.0
Info:    1	1.0	86311	80870	90072.98	-3761.98
Info:    2	2.0	8428	5094	5673.70	2754.30
Info:    3	3.0	1132	174	193.80	938.20
Info:    4	4.0	282	3	3.34	278.66
Info:    5	5.0	91	0	0.0	91.0
Info:    6	6.0	28	0	0.0	28.0
Info:    7	7.0	14	0	0.0	14.0
Info:    8	8.0	2	0	0.0	2.0
Info:    9	9.0	1	0	0.0	1.0
Info:    10	10.0	2	0	0.0	2.0
Info:    11	11.0	0	0	0.0	0.0
Info:    12	12.0	0	0	0.0	0.0
Info:    13	13.0	0	0	0.0	0.0
Info:    14	14.0	0	0	0.0	0.0
Info:    15	15.0	0	0	0.0	0.0
Info:    16	16.0	0	0	0.0	0.0
Info:    17	17.0	0	0	0.0	0.0
Info:    18	18.0	0	0	0.0	0.0
Info:    19	19.0	0	0	0.0	0.0
Info:    20	20.0	0	0	0.0	0.0
Info:    21	21.0	0	0	0.0	0.0
Info:    22	22.0	0	0	0.0	0.0
Info:    23	23.0	0	0	0.0	0.0
Info:    24	24.0	0	0	0.0	0.0
Info:    25	25.0	0	0	0.0	0.0
Info:    26	26.0	0	0	0.0	0.0
Info:    27	27.0	0	0	0.0	0.0
Info:    28	28.0	0	0	0.0	0.0
Info:    29	29.0	0	0	0.0	0.0
Info:    30	30.0	0	0	0.0	0.0
Info:    31	31.0	0	0	0.0	0.0
Info:    32	32.0	0	0	0.0	0.0
Info:    33	33.0	0	0	0.0	0.0
Info:    34	34.0	0	0	0.0	0.0
Info:    35	35.0	0	0	0.0	0.0
Info:    36	36.0	0	0	0.0	0.0
Info:    37	37.0	0	0	0.0	0.0
Info:    38	38.0	0	0	0.0	0.0
Info:    39	39.0	0	0	0.0	0.0
Info:    40	40.0	1	0	0.0	1.0
Info:    Autothreshold for this chromosome is 4
Info:    Ratio of 1s: 0.7700823564432222
Info:    Ratio of 2s: 1.457346828122176
Info:    Average: 1.1137145922826992
Info:    Bin	Value	sample	control	n.control	difference
Info:    0	0.0	0	0	0.0	0.0
Info:    1	1.0	86496	80870	90066.10	-3570.10
Info:    2	2.0	8592	5094	5673.26	2918.74
Info:    3	3.0	1205	174	193.79	1011.21
Info:    4	4.0	276	3	3.34	272.66
Info:    5	5.0	84	0	0.0	84.0
Info:    6	6.0	32	0	0.0	32.0
Info:    7	7.0	4	0	0.0	4.0
Info:    8	8.0	4	0	0.0	4.0
Info:    9	9.0	0	0	0.0	0.0
Info:    10	10.0	0	0	0.0	0.0
Info:    11	11.0	0	0	0.0	0.0
Info:    12	12.0	0	0	0.0	0.0
Info:    13	13.0	0	0	0.0	0.0
Info:    14	14.0	0	0	0.0	0.0
Info:    15	15.0	0	0	0.0	0.0
Info:    16	16.0	0	0	0.0	0.0
Info:    17	17.0	0	0	0.0	0.0
Info:    18	18.0	0	0	0.0	0.0
Info:    19	19.0	0	0	0.0	0.0
Info:    20	20.0	0	0	0.0	0.0
Info:    21	21.0	0	0	0.0	0.0
Info:    22	22.0	0	0	0.0	0.0
Info:    23	23.0	0	0	0.0	0.0
Info:    24	24.0	0	0	0.0	0.0
Info:    25	25.0	0	0	0.0	0.0
Info:    26	26.0	0	0	0.0	0.0
Info:    27	27.0	0	0	0.0	0.0
Info:    28	28.0	0	0	0.0	0.0
Info:    29	29.0	0	0	0.0	0.0
Info:    30	30.0	0	0	0.0	0.0
Info:    31	31.0	0	0	0.0	0.0
Info:    32	32.0	0	0	0.0	0.0
Info:    33	33.0	0	0	0.0	0.0
Info:    34	34.0	0	0	0.0	0.0
Info:    35	35.0	0	0	0.0	0.0
Info:    36	36.0	0	0	0.0	0.0
Info:    37	37.0	0	0	0.0	0.0
Info:    38	38.0	0	0	0.0	0.0
Info:    39	39.0	0	0	0.0	0.0
Info:    40	40.0	0	0	0.0	0.0
Info:    Autothreshold for this chromosome is 4
Info:    Ratio of 1s: 0.7637603299927708
Info:    Ratio of 2s: 1.4462317007048617
Info:    Average: 1.1049960153488163
Info:    Bin	Value	sample	control	n.control	difference
Info:    0	0.0	0	0	0.0	0.0
Info:    1	1.0	86162	80870	89361.03	-3199.03
Info:    2	2.0	8402	5094	5628.85	2773.15
Info:    3	3.0	1150	174	192.27	957.73
Info:    4	4.0	300	3	3.31	296.69
Info:    5	5.0	78	0	0.0	78.0
Info:    6	6.0	26	0	0.0	26.0
Info:    7	7.0	4	0	0.0	4.0
Info:    8	8.0	3	0	0.0	3.0
Info:    9	9.0	3	0	0.0	3.0
Info:    10	10.0	1	0	0.0	1.0
Info:    11	11.0	2	0	0.0	2.0
Info:    12	12.0	0	0	0.0	0.0
Info:    13	13.0	0	0	0.0	0.0
Info:    14	14.0	0	0	0.0	0.0
Info:    15	15.0	0	0	0.0	0.0
Info:    16	16.0	0	0	0.0	0.0
Info:    17	17.0	0	0	0.0	0.0
Info:    18	18.0	0	0	0.0	0.0
Info:    19	19.0	0	0	0.0	0.0
Info:    20	20.0	0	0	0.0	0.0
Info:    21	21.0	0	0	0.0	0.0
Info:    22	22.0	0	0	0.0	0.0
Info:    23	23.0	0	0	0.0	0.0
Info:    24	24.0	0	0	0.0	0.0
Info:    25	25.0	0	0	0.0	0.0
Info:    26	26.0	0	0	0.0	0.0
Info:    27	27.0	0	0	0.0	0.0
Info:    28	28.0	0	0	0.0	0.0
Info:    29	29.0	0	0	0.0	0.0
Info:    30	30.0	0	0	0.0	0.0
Info:    31	31.0	0	0	0.0	0.0
Info:    32	32.0	0	0	0.0	0.0
Info:    33	33.0	0	0	0.0	0.0
Info:    34	34.0	1	0	0.0	1.0
Info:    35	35.0	0	0	0.0	0.0
Info:    36	36.0	0	0	0.0	0.0
Info:    37	37.0	0	0	0.0	0.0
Info:    38	38.0	0	0	0.0	0.0
Info:    39	39.0	0	0	0.0	0.0
Info:    40	40.0	0	0	0.0	0.0
Info:    Autothreshold for this chromosome is 4
Info:    Ratio of 1s: 0.7592279753357547
Info:    Ratio of 2s: 1.4835074216602528
Info:    Average: 1.1213676984980037
Info:    Bin	Value	sample	control	n.control	difference
Info:    0	0.0	0	0	0.0	0.0
Info:    1	1.0	86311	81130	90976.56	-4665.56
Info:    2	2.0	8428	5118	5739.16	2688.84
Info:    3	3.0	1132	148	165.96	966.04
Info:    4	4.0	282	2	2.24	279.76
Info:    5	5.0	91	0	0.0	91.0
Info:    6	6.0	28	0	0.0	28.0
Info:    7	7.0	14	0	0.0	14.0
Info:    8	8.0	2	0	0.0	2.0
Info:    9	9.0	1	0	0.0	1.0
Info:    10	10.0	2	0	0.0	2.0
Info:    11	11.0	0	0	0.0	0.0
Info:    12	12.0	0	0	0.0	0.0
Info:    13	13.0	0	0	0.0	0.0
Info:    14	14.0	0	0	0.0	0.0
Info:    15	15.0	0	0	0.0	0.0
Info:    16	16.0	0	0	0.0	0.0
Info:    17	17.0	0	0	0.0	0.0
Info:    18	18.0	0	0	0.0	0.0
Info:    19	19.0	0	0	0.0	0.0
Info:    20	20.0	0	0	0.0	0.0
Info:    21	21.0	0	0	0.0	0.0
Info:    22	22.0	0	0	0.0	0.0
Info:    23	23.0	0	0	0.0	0.0
Info:    24	24.0	0	0	0.0	0.0
Info:    25	25.0	0	0	0.0	0.0
Info:    26	26.0	0	0	0.0	0.0
Info:    27	27.0	0	0	0.0	0.0
Info:    28	28.0	0	0	0.0	0.0
Info:    29	29.0	0	0	0.0	0.0
Info:    30	30.0	0	0	0.0	0.0
Info:    31	31.0	0	0	0.0	0.0
Info:    32	32.0	0	0	0.0	0.0
Info:    33	33.0	0	0	0.0	0.0
Info:    34	34.0	0	0	0.0	0.0
Info:    35	35.0	0	0	0.0	0.0
Info:    36	36.0	0	0	0.0	0.0
Info:    37	37.0	0	0	0.0	0.0
Info:    38	38.0	0	0	0.0	0.0
Info:    39	39.0	0	0	0.0	0.0
Info:    40	40.0	1	0	0.0	1.0
Info:    Autothreshold for this chromosome is 4
Info:    Ratio of 1s: 0.7648027705042656
Info:    Ratio of 2s: 1.4776433938061206
Info:    Average: 1.1212230821551932
Info:    Bin	Value	sample	control	n.control	difference
Info:    0	0.0	0	0	0.0	0.0
Info:    1	1.0	86496	81130	90964.83	-4468.83
Info:    2	2.0	8592	5118	5738.42	2853.58
Info:    3	3.0	1205	148	165.94	1039.06
Info:    4	4.0	276	2	2.24	273.76
Info:    5	5.0	84	0	0.0	84.0
Info:    6	6.0	32	0	0.0	32.0
Info:    7	7.0	4	0	0.0	4.0
Info:    8	8.0	4	0	0.0	4.0
Info:    9	9.0	0	0	0.0	0.0
Info:    10	10.0	0	0	0.0	0.0
Info:    11	11.0	0	0	0.0	0.0
Info:    12	12.0	0	0	0.0	0.0
Info:    13	13.0	0	0	0.0	0.0
Info:    14	14.0	0	0	0.0	0.0
Info:    15	15.0	0	0	0.0	0.0
Info:    16	16.0	0	0	0.0	0.0
Info:    17	17.0	0	0	0.0	0.0
Info:    18	18.0	0	0	0.0	0.0
Info:    19	19.0	0	0	0.0	0.0
Info:    20	20.0	0	0	0.0	0.0
Info:    21	21.0	0	0	0.0	0.0
Info:    22	22.0	0	0	0.0	0.0
Info:    23	23.0	0	0	0.0	0.0
Info:    24	24.0	0	0	0.0	0.0
Info:    25	25.0	0	0	0.0	0.0
Info:    26	26.0	0	0	0.0	0.0
Info:    27	27.0	0	0	0.0	0.0
Info:    28	28.0	0	0	0.0	0.0
Info:    29	29.0	0	0	0.0	0.0
Info:    30	30.0	0	0	0.0	0.0
Info:    31	31.0	0	0	0.0	0.0
Info:    32	32.0	0	0	0.0	0.0
Info:    33	33.0	0	0	0.0	0.0
Info:    34	34.0	0	0	0.0	0.0
Info:    35	35.0	0	0	0.0	0.0
Info:    36	36.0	0	0	0.0	0.0
Info:    37	37.0	0	0	0.0	0.0
Info:    38	38.0	0	0	0.0	0.0
Info:    39	39.0	0	0	0.0	0.0
Info:    40	40.0	0	0	0.0	0.0
Info:    Autothreshold for this chromosome is 4
Info:    Ratio of 1s: 0.7585240870569023
Info:    Ratio of 2s: 1.46637346527396
Info:    Average: 1.1124487761654311
Info:    Bin	Value	sample	control	n.control	difference
Info:    0	0.0	0	0	0.0	0.0
Info:    1	1.0	86162	81130	90252.97	-4090.97
Info:    2	2.0	8402	5118	5693.51	2708.49
Info:    3	3.0	1150	148	164.64	985.36
Info:    4	4.0	300	2	2.22	297.78
Info:    5	5.0	78	0	0.0	78.0
Info:    6	6.0	26	0	0.0	26.0
Info:    7	7.0	4	0	0.0	4.0
Info:    8	8.0	3	0	0.0	3.0
Info:    9	9.0	3	0	0.0	3.0
Info:    10	10.0	1	0	0.0	1.0
Info:    11	11.0	2	0	0.0	2.0
Info:    12	12.0	0	0	0.0	0.0
Info:    13	13.0	0	0	0.0	0.0
Info:    14	14.0	0	0	0.0	0.0
Info:    15	15.0	0	0	0.0	0.0
Info:    16	16.0	0	0	0.0	0.0
Info:    17	17.0	0	0	0.0	0.0
Info:    18	18.0	0	0	0.0	0.0
Info:    19	19.0	0	0	0.0	0.0
Info:    20	20.0	0	0	0.0	0.0
Info:    21	21.0	0	0	0.0	0.0
Info:    22	22.0	0	0	0.0	0.0
Info:    23	23.0	0	0	0.0	0.0
Info:    24	24.0	0	0	0.0	0.0
Info:    25	25.0	0	0	0.0	0.0
Info:    26	26.0	0	0	0.0	0.0
Info:    27	27.0	0	0	0.0	0.0
Info:    28	28.0	0	0	0.0	0.0
Info:    29	29.0	0	0	0.0	0.0
Info:    30	30.0	0	0	0.0	0.0
Info:    31	31.0	0	0	0.0	0.0
Info:    32	32.0	0	0	0.0	0.0
Info:    33	33.0	0	0	0.0	0.0
Info:    34	34.0	1	0	0.0	1.0
Info:    35	35.0	0	0	0.0	0.0
Info:    36	36.0	0	0	0.0	0.0
Info:    37	37.0	0	0	0.0	0.0
Info:    38	38.0	0	0	0.0	0.0
Info:    39	39.0	0	0	0.0	0.0
Info:    40	40.0	0	0	0.0	0.0
Info:    Autothreshold for this chromosome is 4
Info:    Ratio of 1s: 0.7591211080457182
Info:    Ratio of 2s: 1.489375402446877
Info:    Average: 1.1242482552462976
Info:    Bin	Value	sample	control	n.control	difference
Info:    0	0.0	0	0	0.0	0.0
Info:    1	1.0	86311	81317	91420.50	-5109.50
Info:    2	2.0	8428	4987	5606.63	2821.37
Info:    3	3.0	1132	193	216.98	915.02
Info:    4	4.0	282	6	6.75	275.25
Info:    5	5.0	91	0	0.0	91.0
Info:    6	6.0	28	0	0.0	28.0
Info:    7	7.0	14	0	0.0	14.0
Info:    8	8.0	2	0	0.0	2.0
Info:    9	9.0	1	0	0.0	1.0
Info:    10	10.0	2	0	0.0	2.0
Info:    11	11.0	0	0	0.0	0.0
Info:    12	12.0	0	0	0.0	0.0
Info:    13	13.0	0	0	0.0	0.0
Info:    14	14.0	0	0	0.0	0.0
Info:    15	15.0	0	0	0.0	0.0
Info:    16	16.0	0	0	0.0	0.0
Info:    17	17.0	0	0	0.0	0.0
Info:    18	18.0	0	0	0.0	0.0
Info:    19	19.0	0	0	0.0	0.0
Info:    20	20.0	0	0	0.0	0.0
Info:    21	21.0	0	0	0.0	0.0
Info:    22	22.0	0	0	0.0	0.0
Info:    23	23.0	0	0	0.0	0.0
Info:    24	24.0	0	0	0.0	0.0
Info:    25	25.0	0	0	0.0	0.0
Info:    26	26.0	0	0	0.0	0.0
Info:    27	27.0	0	0	0.0	0.0
Info:    28	28.0	0	0	0.0	0.0
Info:    29	29.0	0	0	0.0	0.0
Info:    30	30.0	0	0	0.0	0.0
Info:    31	31.0	0	0	0.0	0.0
Info:    32	32.0	0	0	0.0	0.0
Info:    33	33.0	0	0	0.0	0.0
Info:    34	34.0	0	0	0.0	0.0
Info:    35	35.0	0	0	0.0	0.0
Info:    36	36.0	0	0	0.0	0.0
Info:    37	37.0	0	0	0.0	0.0
Info:    38	38.0	0	0	0.0	0.0
Info:    39	39.0	0	0	0.0	0.0
Info:    40	40.0	1	0	0.0	1.0
Info:    Autothreshold for this chromosome is 5
Info:    Ratio of 1s: 0.7646951185181015
Info:    Ratio of 2s: 1.483488179560298
Info:    Average: 1.1240916490391997
Info:    Bin	Value	sample	control	n.control	difference
Info:    0	0.0	0	0	0.0	0.0
Info:    1	1.0	86496	81317	91407.76	-4911.76
Info:    2	2.0	8592	4987	5605.85	2986.15
Info:    3	3.0	1205	193	216.95	988.05
Info:    4	4.0	276	6	6.74	269.26
Info:    5	5.0	84	0	0.0	84.0
Info:    6	6.0	32	0	0.0	32.0
Info:    7	7.0	4	0	0.0	4.0
Info:    8	8.0	4	0	0.0	4.0
Info:    9	9.0	0	0	0.0	0.0
Info:    10	10.0	0	0	0.0	0.0
Info:    11	11.0	0	0	0.0	0.0
Info:    12	12.0	0	0	0.0	0.0
Info:    13	13.0	0	0	0.0	0.0
Info:    14	14.0	0	0	0.0	0.0
Info:    15	15.0	0	0	0.0	0.0
Info:    16	16.0	0	0	0.0	0.0
Info:    17	17.0	0	0	0.0	0.0
Info:    18	18.0	0	0	0.0	0.0
Info:    19	19.0	0	0	0.0	0.0
Info:    20	20.0	0	0	0.0	0.0
Info:    21	21.0	0	0	0.0	0.0
Info:    22	22.0	0	0	0.0	0.0
Info:    23	23.0	0	0	0.0	0.0
Info:    24	24.0	0	0	0.0	0.0
Info:    25	25.0	0	0	0.0	0.0
Info:    26	26.0	0	0	0.0	0.0
Info:    27	27.0	0	0	0.0	0.0
Info:    28	28.0	0	0	0.0	0.0
Info:    29	29.0	0	0	0.0	0.0
Info:    30	30.0	0	0	0.0	0.0
Info:    31	31.0	0	0	0.0	0.0
Info:    32	32.0	0	0	0.0	0.0
Info:    33	33.0	0	0	0.0	0.0
Info:    34	34.0	0	0	0.0	0.0
Info:    35	35.0	0	0	0.0	0.0
Info:    36	36.0	0	0	0.0	0.0
Info:    37	37.0	0	0	0.0	0.0
Info:    38	38.0	0	0	0.0	0.0
Info:    39	39.0	0	0	0.0	0.0
Info:    40	40.0	0	0	0.0	0.0
Info:    Autothreshold for this chromosome is 5
Info:    Ratio of 1s: 0.7584173188446597
Info:    Ratio of 2s: 1.472173673075154
Info:    Average: 1.1152954959599068
Info:    Bin	Value	sample	control	n.control	difference
Info:    0	0.0	0	0	0.0	0.0
Info:    1	1.0	86162	81317	90692.48	-4530.48
Info:    2	2.0	8402	4987	5561.98	2840.02
Info:    3	3.0	1150	193	215.25	934.75
Info:    4	4.0	300	6	6.69	293.31
Info:    5	5.0	78	0	0.0	78.0
Info:    6	6.0	26	0	0.0	26.0
Info:    7	7.0	4	0	0.0	4.0
Info:    8	8.0	3	0	0.0	3.0
Info:    9	9.0	3	0	0.0	3.0
Info:    10	10.0	1	0	0.0	1.0
Info:    11	11.0	2	0	0.0	2.0
Info:    12	12.0	0	0	0.0	0.0
Info:    13	13.0	0	0	0.0	0.0
Info:    14	14.0	0	0	0.0	0.0
Info:    15	15.0	0	0	0.0	0.0
Info:    16	16.0	0	0	0.0	0.0
Info:    17	17.0	0	0	0.0	0.0
Info:    18	18.0	0	0	0.0	0.0
Info:    19	19.0	0	0	0.0	0.0
Info:    20	20.0	0	0	0.0	0.0
Info:    21	21.0	0	0	0.0	0.0
Info:    22	22.0	0	0	0.0	0.0
Info:    23	23.0	0	0	0.0	0.0
Info:    24	24.0	0	0	0.0	0.0
Info:    25	25.0	0	0	0.0	0.0
Info:    26	26.0	0	0	0.0	0.0
Info:    27	27.0	0	0	0.0	0.0
Info:    28	28.0	0	0	0.0	0.0
Info:    29	29.0	0	0	0.0	0.0
Info:    30	30.0	0	0	0.0	0.0
Info:    31	31.0	0	0	0.0	0.0
Info:    32	32.0	0	0	0.0	0.0
Info:    33	33.0	0	0	0.0	0.0
Info:    34	34.0	1	0	0.0	1.0
Info:    35	35.0	0	0	0.0	0.0
Info:    36	36.0	0	0	0.0	0.0
Info:    37	37.0	0	0	0.0	0.0
Info:    38	38.0	0	0	0.0	0.0
Info:    39	39.0	0	0	0.0	0.0
Info:    40	40.0	0	0	0.0	0.0
Info:    Autothreshold for this chromosome is 5
Info:    Ratio of 1s: 0.7589395026807954
Info:    Ratio of 2s: 1.4877331618120004
Info:    Average: 1.1233363322463978
Info:    Bin	Value	sample	control	n.control	difference
Info:    0	0.0	0	0	0.0	0.0
Info:    1	1.0	86311	81251	91272.20	-4961.20
Info:    2	2.0	8428	5029	5649.26	2778.74
Info:    3	3.0	1132	151	169.62	962.38
Info:    4	4.0	282	2	2.25	279.75
Info:    5	5.0	91	0	0.0	91.0
Info:    6	6.0	28	0	0.0	28.0
Info:    7	7.0	14	0	0.0	14.0
Info:    8	8.0	2	0	0.0	2.0
Info:    9	9.0	1	0	0.0	1.0
Info:    10	10.0	2	0	0.0	2.0
Info:    11	11.0	0	0	0.0	0.0
Info:    12	12.0	0	0	0.0	0.0
Info:    13	13.0	0	0	0.0	0.0
Info:    14	14.0	0	0	0.0	0.0
Info:    15	15.0	0	0	0.0	0.0
Info:    16	16.0	0	0	0.0	0.0
Info:    17	17.0	0	0	0.0	0.0
Info:    18	18.0	0	0	0.0	0.0
Info:    19	19.0	0	0	0.0	0.0
Info:    20	20.0	0	0	0.0	0.0
Info:    21	21.0	0	0	0.0	0.0
Info:    22	22.0	0	0	0.0	0.0
Info:    23	23.0	0	0	0.0	0.0
Info:    24	24.0	0	0	0.0	0.0
Info:    25	25.0	0	0	0.0	0.0
Info:    26	26.0	0	0	0.0	0.0
Info:    27	27.0	0	0	0.0	0.0
Info:    28	28.0	0	0	0.0	0.0
Info:    29	29.0	0	0	0.0	0.0
Info:    30	30.0	0	0	0.0	0.0
Info:    31	31.0	0	0	0.0	0.0
Info:    32	32.0	0	0	0.0	0.0
Info:    33	33.0	0	0	0.0	0.0
Info:    34	34.0	0	0	0.0	0.0
Info:    35	35.0	0	0	0.0	0.0
Info:    36	36.0	0	0	0.0	0.0
Info:    37	37.0	0	0	0.0	0.0
Info:    38	38.0	0	0	0.0	0.0
Info:    39	39.0	0	0	0.0	0.0
Info:    40	40.0	1	0	0.0	1.0
Info:    Autothreshold for this chromosome is 4
Info:    Ratio of 1s: 0.7645121796766159
Info:    Ratio of 2s: 1.4818524303960305
Info:    Average: 1.1231823050363232
Info:    Bin	Value	sample	control	n.control	difference
Info:    0	0.0	0	0	0.0	0.0
Info:    1	1.0	86496	81251	91259.69	-4763.69
Info:    2	2.0	8592	5029	5648.48	2943.52
Info:    3	3.0	1205	151	169.60	1035.40
Info:    4	4.0	276	2	2.25	273.75
Info:    5	5.0	84	0	0.0	84.0
Info:    6	6.0	32	0	0.0	32.0
Info:    7	7.0	4	0	0.0	4.0
Info:    8	8.0	4	0	0.0	4.0
Info:    9	9.0	0	0	0.0	0.0
Info:    10	10.0	0	0	0.0	0.0
Info:    11	11.0	0	0	0.0	0.0
Info:    12	12.0	0	0	0.0	0.0
Info:    13	13.0	0	0	0.0	0.0
Info:    14	14.0	0	0	0.0	0.0
Info:    15	15.0	0	0	0.0	0.0
Info:    16	16.0	0	0	0.0	0.0
Info:    17	17.0	0	0	0.0	0.0
Info:    18	18.0	0	0	0.0	0.0
Info:    19	19.0	0	0	0.0	0.0
Info:    20	20.0	0	0	0.0	0.0
Info:    21	21.0	0	0	0.0	0.0
Info:    22	22.0	0	0	0.0	0.0
Info:    23	23.0	0	0	0.0	0.0
Info:    24	24.0	0	0	0.0	0.0
Info:    25	25.0	0	0	0.0	0.0
Info:    26	26.0	0	0	0.0	0.0
Info:    27	27.0	0	0	0.0	0.0
Info:    28	28.0	0	0	0.0	0.0
Info:    29	29.0	0	0	0.0	0.0
Info:    30	30.0	0	0	0.0	0.0
Info:    31	31.0	0	0	0.0	0.0
Info:    32	32.0	0	0	0.0	0.0
Info:    33	33.0	0	0	0.0	0.0
Info:    34	34.0	0	0	0.0	0.0
Info:    35	35.0	0	0	0.0	0.0
Info:    36	36.0	0	0	0.0	0.0
Info:    37	37.0	0	0	0.0	0.0
Info:    38	38.0	0	0	0.0	0.0
Info:    39	39.0	0	0	0.0	0.0
Info:    40	40.0	0	0	0.0	0.0
Info:    Autothreshold for this chromosome is 4
Info:    Ratio of 1s: 0.7582358818479897
Info:    Ratio of 2s: 1.4705503997059635
Info:    Average: 1.1143931407769765
Info:    Bin	Value	sample	control	n.control	difference
Info:    0	0.0	0	0	0.0	0.0
Info:    1	1.0	86162	81251	90545.56	-4383.56
Info:    2	2.0	8402	5029	5604.28	2797.72
Info:    3	3.0	1150	151	168.27	981.73
Info:    4	4.0	300	2	2.23	297.77
Info:    5	5.0	78	0	0.0	78.0
Info:    6	6.0	26	0	0.0	26.0
Info:    7	7.0	4	0	0.0	4.0
Info:    8	8.0	3	0	0.0	3.0
Info:    9	9.0	3	0	0.0	3.0
Info:    10	10.0	1	0	0.0	1.0
Info:    11	11.0	2	0	0.0	2.0
Info:    12	12.0	0	0	0.0	0.0
Info:    13	13.0	0	0	0.0	0.0
Info:    14	14.0	0	0	0.0	0.0
Info:    15	15.0	0	0	0.0	0.0
Info:    16	16.0	0	0	0.0	0.0
Info:    17	17.0	0	0	0.0	0.0
Info:    18	18.0	0	0	0.0	0.0
Info:    19	19.0	0	0	0.0	0.0
Info:    20	20.0	0	0	0.0	0.0
Info:    21	21.0	0	0	0.0	0.0
Info:    22	22.0	0	0	0.0	0.0
Info:    23	23.0	0	0	0.0	0.0
Info:    24	24.0	0	0	0.0	0.0
Info:    25	25.0	0	0	0.0	0.0
Info:    26	26.0	0	0	0.0	0.0
Info:    27	27.0	0	0	0.0	0.0
Info:    28	28.0	0	0	0.0	0.0
Info:    29	29.0	0	0	0.0	0.0
Info:    30	30.0	0	0	0.0	0.0
Info:    31	31.0	0	0	0.0	0.0
Info:    32	32.0	0	0	0.0	0.0
Info:    33	33.0	0	0	0.0	0.0
Info:    34	34.0	1	0	0.0	1.0
Info:    35	35.0	0	0	0.0	0.0
Info:    36	36.0	0	0	0.0	0.0
Info:    37	37.0	0	0	0.0	0.0
Info:    38	38.0	0	0	0.0	0.0
Info:    39	39.0	0	0	0.0	0.0
Info:    40	40.0	0	0	0.0	0.0
Info:    Autothreshold for this chromosome is 4
Info:    Ratio of 1s: 0.7612749318916477
Info:    Ratio of 2s: 1.4671076476984415
Info:    Average: 1.1141912897950446
Info:    Bin	Value	sample	control	n.control	difference
Info:    0	0.0	0	0	0.0	0.0
Info:    1	1.0	86311	81104	90365.37	-4054.37
Info:    2	2.0	8428	5071	5650.06	2777.94
Info:    3	3.0	1132	146	162.67	969.33
Info:    4	4.0	282	3	3.34	278.66
Info:    5	5.0	91	0	0.0	91.0
Info:    6	6.0	28	0	0.0	28.0
Info:    7	7.0	14	0	0.0	14.0
Info:    8	8.0	2	0	0.0	2.0
Info:    9	9.0	1	0	0.0	1.0
Info:    10	10.0	2	0	0.0	2.0
Info:    11	11.0	0	0	0.0	0.0
Info:    12	12.0	0	0	0.0	0.0
Info:    13	13.0	0	0	0.0	0.0
Info:    14	14.0	0	0	0.0	0.0
Info:    15	15.0	0	0	0.0	0.0
Info:    16	16.0	0	0	0.0	0.0
Info:    17	17.0	0	0	0.0	0.0
Info:    18	18.0	0	0	0.0	0.0
Info:    19	19.0	0	0	0.0	0.0
Info:    20	20.0	0	0	0.0	0.0
Info:    21	21.0	0	0	0.0	0.0
Info:    22	22.0	0	0	0.0	0.0
Info:    23	23.0	0	0	0.0	0.0
Info:    24	24.0	0	0	0.0	0.0
Info:    25	25.0	0	0	0.0	0.0
Info:    26	26.0	0	0	0.0	0.0
Info:    27	27.0	0	0	0.0	0.0
Info:    28	28.0	0	0	0.0	0.0
Info:    29	29.0	0	0	0.0	0.0
Info:    30	30.0	0	0	0.0	0.0
Info:    31	31.0	0	0	0.0	0.0
Info:    32	32.0	0	0	0.0	0.0
Info:    33	33.0	0	0	0.0	0.0
Info:    34	34.0	0	0	0.0	0.0
Info:    35	35.0	0	0	0.0	0.0
Info:    36	36.0	0	0	0.0	0.0
Info:    37	37.0	0	0	0.0	0.0
Info:    38	38.0	0	0	0.0	0.0
Info:    39	39.0	0	0	0.0	0.0
Info:    40	40.0	1	0	0.0	1.0
Info:    Autothreshold for this chromosome is 4
Info:    Ratio of 1s: 0.7668647572801829
Info:    Ratio of 2s: 1.4613084450888003
Info:    Average: 1.1140866011844917
Info:    Bin	Value	sample	control	n.control	difference
Info:    0	0.0	0	0	0.0	0.0
Info:    1	1.0	86496	81104	90356.88	-3860.88
Info:    2	2.0	8592	5071	5649.53	2942.47
Info:    3	3.0	1205	146	162.66	1042.34
Info:    4	4.0	276	3	3.34	272.66
Info:    5	5.0	84	0	0.0	84.0
Info:    6	6.0	32	0	0.0	32.0
Info:    7	7.0	4	0	0.0	4.0
Info:    8	8.0	4	0	0.0	4.0
Info:    9	9.0	0	0	0.0	0.0
Info:    10	10.0	0	0	0.0	0.0
Info:    11	11.0	0	0	0.0	0.0
Info:    12	12.0	0	0	0.0	0.0
Info:    13	13.0	0	0	0.0	0.0
Info:    14	14.0	0	0	0.0	0.0
Info:    15	15.0	0	0	0.0	0.0
Info:    16	16.0	0	0	0.0	0.0
Info:    17	17.0	0	0	0.0	0.0
Info:    18	18.0	0	0	0.0	0.0
Info:    19	19.0	0	0	0.0	0.0
Info:    20	20.0	0	0	0.0	0.0
Info:    21	21.0	0	0	0.0	0.0
Info:    22	22.0	0	0	0.0	0.0
Info:    23	23.0	0	0	0.0	0.0
Info:    24	24.0	0	0	0.0	0.0
Info:    25	25.0	0	0	0.0	0.0
Info:    26	26.0	0	0	0.0	0.0
Info:    27	27.0	0	0	0.0	0.0
Info:    28	28.0	0	0	0.0	0.0
Info:    29	29.0	0	0	0.0	0.0
Info:    30	30.0	0	0	0.0	0.0
Info:    31	31.0	0	0	0.0	0.0
Info:    32	32.0	0	0	0.0	0.0
Info:    33	33.0	0	0	0.0	0.0
Info:    34	34.0	0	0	0.0	0.0
Info:    35	35.0	0	0	0.0	0.0
Info:    36	36.0	0	0	0.0	0.0
Info:    37	37.0	0	0	0.0	0.0
Info:    38	38.0	0	0	0.0	0.0
Info:    39	39.0	0	0	0.0	0.0
Info:    40	40.0	0	0	0.0	0.0
Info:    Autothreshold for this chromosome is 4
Info:    Ratio of 1s: 0.7605691458577417
Info:    Ratio of 2s: 1.450163102573396
Info:    Average: 1.105366124215569
Info:    Bin	Value	sample	control	n.control	difference
Info:    0	0.0	0	0	0.0	0.0
Info:    1	1.0	86162	81104	89649.61	-3487.61
Info:    2	2.0	8402	5071	5605.31	2796.69
Info:    3	3.0	1150	146	161.38	988.62
Info:    4	4.0	300	3	3.32	296.68
Info:    5	5.0	78	0	0.0	78.0
Info:    6	6.0	26	0	0.0	26.0
Info:    7	7.0	4	0	0.0	4.0
Info:    8	8.0	3	0	0.0	3.0
Info:    9	9.0	3	0	0.0	3.0
Info:    10	10.0	1	0	0.0	1.0
Info:    11	11.0	2	0	0.0	2.0
Info:    12	12.0	0	0	0.0	0.0
Info:    13	13.0	0	0	0.0	0.0
Info:    14	14.0	0	0	0.0	0.0
Info:    15	15.0	0	0	0.0	0.0
Info:    16	16.0	0	0	0.0	0.0
Info:    17	17.0	0	0	0.0	0.0
Info:    18	18.0	0	0	0.0	0.0
Info:    19	19.0	0	0	0.0	0.0
Info:    20	20.0	0	0	0.0	0.0
Info:    21	21.0	0	0	0.0	0.0
Info:    22	22.0	0	0	0.0	0.0
Info:    23	23.0	0	0	0.0	0.0
Info:    24	24.0	0	0	0.0	0.0
Info:    25	25.0	0	0	0.0	0.0
Info:    26	26.0	0	0	0.0	0.0
Info:    27	27.0	0	0	0.0	0.0
Info:    28	28.0	0	0	0.0	0.0
Info:    29	29.0	0	0	0.0	0.0
Info:    30	30.0	0	0	0.0	0.0
Info:    31	31.0	0	0	0.0	0.0
Info:    32	32.0	0	0	0.0	0.0
Info:    33	33.0	0	0	0.0	0.0
Info:    34	34.0	1	0	0.0	1.0
Info:    35	35.0	0	0	0.0	0.0
Info:    36	36.0	0	0	0.0	0.0
Info:    37	37.0	0	0	0.0	0.0
Info:    38	38.0	0	0	0.0	0.0
Info:    39	39.0	0	0	0.0	0.0
Info:    40	40.0	0	0	0.0	0.0
Info:    Autothreshold for this chromosome is 4
Info:    Standard Deviation of threshold for this set is: -6.357829E-7
Info:    
Info:    ------------------------------------------------------------------------
Info:    Chromosome 1 Statistics
Info:    Estimated Chromosome Size :  247,199,411
Info:    Using Effective chr size of 0.7 * estimated size : 173,039,584
Info:    Observed Coverage         : 43,762,192
Info:    Generating random reads in batches of : 43,762
Info:    ------------------------------------------------------------------------
Info:    Performing Simulations.
Info:    1
Info:    Reads used: 43760
Info:    Reads filtered by duplicate: 2
Info:    Reads used: 87514
Info:    Reads filtered by duplicate: 10
Info:    Reads used: 131255
Info:    Reads filtered by duplicate: 31
Info:    Reads used: 174994
Info:    Reads filtered by duplicate: 54
Info:    2
Info:    Reads used: 43759
Info:    Reads filtered by duplicate: 3
Info:    Reads used: 87512
Info:    Reads filtered by duplicate: 12
Info:    Reads used: 131256
Info:    Reads filtered by duplicate: 30
Info:    Reads used: 174993
Info:    Reads filtered by duplicate: 55
Info:    3
Info:    Reads used: 43762
Info:    Reads used: 87510
Info:    Reads filtered by duplicate: 14
Info:    Reads used: 131258
Info:    Reads filtered by duplicate: 28
Info:    Reads used: 175003
Info:    Reads filtered by duplicate: 45
Info:    4
Info:    Reads used: 43759
Info:    Reads filtered by duplicate: 3
Info:    Reads used: 87514
Info:    Reads filtered by duplicate: 10
Info:    Reads used: 131261
Info:    Reads filtered by duplicate: 25
Info:    Reads used: 175007
Info:    Reads filtered by duplicate: 41
Info:    5
Info:    Reads used: 43758
Info:    Reads filtered by duplicate: 4
Info:    Reads used: 87515
Info:    Reads filtered by duplicate: 9
Info:    Reads used: 131267
Info:    Reads filtered by duplicate: 19
Info:    Reads used: 175010
Info:    Reads filtered by duplicate: 38
Info:    6
Info:    Reads used: 43757
Info:    Reads filtered by duplicate: 5
Info:    Reads used: 87509
Info:    Reads filtered by duplicate: 15
Info:    Reads used: 131262
Info:    Reads filtered by duplicate: 24
Info:    Reads used: 175006
Info:    Reads filtered by duplicate: 42
Info:    7
Info:    Reads used: 43758
Info:    Reads filtered by duplicate: 4
Info:    Reads used: 87508
Info:    Reads filtered by duplicate: 16
Info:    Reads used: 131260
Info:    Reads filtered by duplicate: 26
Info:    Reads used: 175007
Info:    Reads filtered by duplicate: 41
Info:    8
Info:    Reads used: 43759
Info:    Reads filtered by duplicate: 3
Info:    Reads used: 87515
Info:    Reads filtered by duplicate: 9
Info:    Reads used: 131256
Info:    Reads filtered by duplicate: 30
Info:    Reads used: 175001
Info:    Reads filtered by duplicate: 47
Info:    9
Info:    Reads used: 43761
Info:    Reads filtered by duplicate: 1