genome.fa.s8.2.7.7.80.10.50.1000.8.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: Chr9
Parameters: 2 7 7 80 10 50 1000
Length:  48574783

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   

This is table  8  of  135  ( 16172 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3607767--3608031	67	4.0	67	98	0	503	20	17	33	28	1.95
3613859--3614121	131	2.0	132	99	0	519	28	23	9	38	1.86
3617936--3617983	15	2.9	17	72	12	55	39	6	6	47	1.54
3633241--3633309	33	2.1	34	97	2	131	36	13	14	36	1.85
3661306--3661892	293	2.0	294	99	0	1167	33	7	12	45	1.71
3662010--3662080	31	2.3	31	82	2	99	46	5	2	45	1.41
3662286--3662403	32	3.1	40	65	22	117	55	5	5	33	1.46
3662286--3662434	74	2.0	75	98	1	291	55	5	5	33	1.45
3663456--3663502	22	2.1	22	84	7	60	46	8	2	42	1.46
3663829--3663868	19	2.1	19	95	0	71	42	2	15	40	1.60
3663879--3663915	15	2.5	15	86	0	56	56	0	0	43	0.99
3665196--3665260	28	2.3	27	84	12	78	64	1	1	32	1.12
3665470--3665537	30	2.3	30	80	7	77	30	4	0	64	1.13
3665508--3665558	20	2.6	21	77	20	56	39	1	0	58	1.09
3675911--3675936	2	13.0	2	100	0	52	0	0	50	50	1.00
3677110--3677162	19	2.8	19	77	8	54	37	3	1	56	1.28
3693081--3693111	2	15.5	2	93	0	53	0	45	0	54	0.99
3694290--3694365	26	3.0	25	80	3	89	61	5	0	32	1.18
3701023--3701054	2	16.0	2	100	0	64	50	0	50	0	1.00
3704474--3704914	224	2.0	224	98	0	855	36	19	12	31	1.89
3723295--3723360	34	1.9	34	90	6	107	46	10	7	34	1.67
3723329--3723368	14	2.9	14	82	14	55	45	12	5	37	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3723538--3723607	13	5.5	13	75	13	65	55	1	2	40	1.23
3723534--3723571	19	2.1	18	90	5	58	52	2	0	44	1.14
3733028--3733195	55	3.1	55	100	0	336	16	19	11	52	1.74
3741542--3741614	36	2.0	36	84	5	94	38	9	13	38	1.78
3757242--3757294	20	2.6	21	76	8	56	64	1	0	33	1.05
3757405--3757454	26	1.9	26	91	0	82	44	2	2	52	1.24
3757834--3757903	20	3.5	20	70	11	63	62	4	0	32	1.14
3762418--3762458	21	2.0	21	90	0	64	21	56	4	17	1.60
3762481--3762519	15	2.6	15	91	0	60	35	46	5	12	1.65
3764833--3764869	14	2.6	14	86	0	56	51	13	18	16	1.76
3766033--3766526	230	2.1	231	96	2	920	38	6	8	46	1.60
3768964--3769025	31	2.0	32	87	3	90	35	20	11	32	1.88
3785795--3785819	3	8.3	3	100	0	50	68	0	0	32	0.90
3787727--3787758	14	2.2	15	94	5	57	78	0	15	6	0.95
3799056--3799114	29	2.0	29	86	0	82	33	11	10	44	1.75
3801578--3801602	4	6.2	4	100	0	50	52	0	0	48	1.00
3804729--3804776	16	2.8	18	81	15	57	27	0	12	60	1.32
3804879--3804965	43	2.0	43	100	0	174	34	4	12	48	1.62
3813016--3813065	13	3.8	13	76	10	57	36	4	20	40	1.71
3816668--3816732	25	2.6	25	81	9	80	60	6	4	29	1.41
3820373--3820431	31	1.9	31	85	0	82	37	8	5	49	1.55
3823353--3823397	19	2.5	17	82	13	54	55	2	11	31	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3823551--3823595	19	2.5	17	82	13	54	55	2	11	31	1.47
3823332--3823732	198	2.0	199	99	0	788	48	7	6	36	1.58
3829639--3829825	97	1.9	95	91	2	302	36	16	16	29	1.91
3856132--3856174	13	3.3	13	83	9	61	39	0	0	60	0.97
3856902--3856934	15	2.1	16	88	5	50	48	0	21	30	1.50
3858613--3858645	15	2.3	15	90	10	52	57	12	6	24	1.57
3860172--3860196	12	2.1	12	100	0	50	16	0	16	68	1.22
3863256--3863303	16	3.0	16	84	0	60	47	8	16	27	1.75
3863313--3863355	15	2.6	17	85	10	63	58	6	4	30	1.45
3863302--3863355	16	3.4	17	77	12	60	61	7	3	27	1.40
3864324--3864354	16	1.9	16	93	0	53	29	12	9	48	1.73
3864996--3865141	73	2.0	73	83	2	186	34	22	21	21	1.97
3865999--3866041	21	2.0	21	95	0	77	41	18	25	13	1.88
3868920--3868986	29	2.3	29	82	5	73	22	16	16	44	1.86
3883115--3883151	2	18.5	2	100	0	74	51	0	0	48	1.00
3886484--3886518	1	35.0	1	88	0	52	94	0	5	0	0.32
3887296--3887323	7	4.0	7	100	0	56	28	0	0	71	0.86
3887591--3887624	15	2.2	16	89	5	52	67	0	0	32	0.91
3902050--3902075	4	6.5	4	100	0	52	26	0	23	50	1.50
3904408--3904441	17	2.0	16	88	11	50	76	2	2	17	1.04
3907605--3907638	18	1.9	18	88	5	52	47	0	2	50	1.16
3911090--3911152	31	2.0	31	100	0	126	33	15	19	31	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3911233--3911280	9	5.3	9	75	9	53	54	0	0	45	0.99
3911246--3911303	18	3.1	18	82	9	55	43	0	1	55	1.10
3911788--3911870	33	2.5	33	84	0	103	49	16	7	26	1.72
3933184--3933235	24	2.2	24	89	0	77	55	9	1	32	1.43
3934015--3934060	5	9.2	5	84	15	60	41	0	0	58	0.98
3934016--3934062	19	2.6	17	90	10	67	42	0	0	57	0.98
3935393--3935527	39	3.5	36	72	13	92	22	20	28	28	1.99
3935955--3935988	17	1.9	18	88	5	52	38	0	26	35	1.57
3938244--3938295	24	2.2	24	92	0	86	53	9	3	32	1.51
3942365--3942398	18	1.9	18	88	5	52	55	5	0	38	1.24
3944672--3944715	21	2.1	21	82	0	52	38	0	25	36	1.56
3946463--3946553	25	3.6	25	89	2	139	19	24	18	37	1.94
3948640--3948702	19	3.3	19	70	20	51	52	1	0	46	1.10
3952864--3952890	3	9.0	3	100	0	54	33	0	0	66	0.92
3956828--3956888	21	2.8	21	80	7	68	42	3	1	52	1.27
3956828--3956896	22	3.1	21	81	8	75	46	2	1	49	1.25
3978959--3978987	2	14.5	2	100	0	58	51	0	0	48	1.00
3979844--3979929	42	2.0	42	88	4	129	16	29	17	37	1.91
4000315--4000341	2	13.5	2	100	0	54	51	0	0	48	1.00
4002681--4002720	15	2.7	15	100	0	80	5	0	12	82	0.82
4002681--4002725	7	6.1	7	87	10	63	4	2	13	80	0.97
4012957--4013005	21	2.3	21	85	0	62	40	10	4	44	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4015486--4015697	30	7.1	30	100	0	424	19	6	36	36	1.78
4019424--4019461	11	3.5	11	82	10	51	47	0	0	52	1.00
4019792--4019824	15	2.1	16	94	5	59	42	0	0	57	0.98
4026532--4026573	22	1.9	22	85	9	59	40	2	4	52	1.35
4026872--4027055	86	2.1	87	96	2	343	43	4	11	40	1.61
4028050--4028091	22	2.0	21	90	4	66	45	0	0	54	0.99
4034237--4034261	5	5.0	5	100	0	50	40	20	0	40	1.52
4050305--4050370	15	4.4	15	82	0	69	51	4	15	28	1.63
4057438--4057522	1	85.0	1	83	0	98	90	7	0	2	0.53
4057434--4057522	29	3.0	29	84	14	112	88	8	0	2	0.59
4057441--4057522	25	3.2	25	91	5	119	90	7	0	2	0.54
4057433--4057522	32	2.8	32	86	5	112	87	10	0	2	0.62
4061023--4061074	26	2.0	26	84	3	68	30	3	1	63	1.23
4063106--4063163	18	3.2	18	71	9	64	43	3	13	39	1.61
4063114--4063174	19	3.3	19	72	9	72	45	3	14	36	1.62
4063101--4063174	36	2.1	36	100	0	148	45	2	13	37	1.58
4063390--4063506	10	11.6	10	68	11	60	29	4	1	64	1.23
4063389--4063507	60	2.0	59	85	6	159	30	5	1	63	1.26
4063587--4063739	78	1.9	81	80	12	181	37	5	11	45	1.62
4064286--4064316	6	5.2	6	92	0	53	48	3	0	48	1.17
4067371--4067395	9	2.8	9	100	0	50	68	8	0	24	1.16
4072949--4073015	27	2.5	27	95	0	116	32	23	31	11	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4073014--4073068	21	2.7	21	88	5	87	56	12	0	30	1.37
4073218--4073250	17	1.9	17	88	11	50	57	3	0	39	1.14
4083917--4083960	19	2.3	20	81	14	58	36	0	4	59	1.18
4083920--4083959	18	2.2	18	86	8	55	35	0	5	60	1.19
4086665--4086744	2	40.0	2	82	9	74	46	3	0	50	1.19
4117396--4117819	211	2.0	212	99	0	841	28	11	11	48	1.74
4121485--4121534	23	2.2	23	85	0	64	32	28	18	22	1.97
4123533--4123625	36	2.6	36	84	3	116	22	33	19	24	1.97
4130660--4130694	2	17.5	2	100	0	70	51	0	48	0	1.00
4146427--4146514	21	4.2	21	81	8	99	37	25	21	15	1.93

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135