genome.fa.s3.2.7.7.80.10.50.1000.13.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: chr3
Parameters: 2 7 7 80 10 50 1000
Length:  36364294

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   

This is table  13  of  91  ( 10898 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)
3889247--3889290	17	2.6	17	96	0	79	0	50	0	50	1.00
3889247--3889290	2	23.0	2	90	9	74	0	50	0	50	1.00
3889441--3889503	2	32.0	2	96	3	119	0	49	0	50	1.00
3899186--3899252	28	2.4	28	94	0	116	23	4	16	55	1.60
3910490--3911408	253	3.7	252	84	1	1069	47	8	9	34	1.65
3912392--3912429	19	2.0	19	100	0	76	26	0	31	42	1.56
3915149--3915190	15	2.9	15	89	3	59	26	2	16	54	1.54
3919335--3919391	21	2.8	20	76	13	53	64	10	0	24	1.24
3919498--3920140	248	2.6	247	82	7	683	50	7	8	34	1.61
3920278--3922021	259	6.9	244	71	11	983	46	8	10	33	1.69
3922111--3922153	21	2.0	21	95	0	77	37	2	9	51	1.47
3926065--3926110	20	2.3	20	96	0	83	45	21	4	28	1.71
3926691--3926733	14	2.9	15	86	13	54	74	0	6	18	1.04
3927226--3927499	139	2.0	139	96	3	500	42	0	9	47	1.40
3941016--3941053	19	2.0	19	100	0	76	26	0	31	42	1.56
3942287--3942311	13	1.9	13	100	0	50	44	0	8	48	1.32
3944281--3944363	40	2.1	39	84	2	103	19	19	21	39	1.92
3959686--3959738	26	2.0	26	100	0	106	41	11	16	30	1.84
3964258--3964297	19	2.0	20	95	4	73	30	0	27	42	1.56
3965389--3965413	13	1.9	13	100	0	50	52	0	0	48	1.00
3971117--3971170	28	2.0	27	88	3	81	33	22	20	24	1.97
3975865--3975906	17	2.5	17	100	0	84	61	0	9	28	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3978795--3978858	12	5.2	12	71	17	51	76	1	17	4	1.03
3978796--3978858	21	3.0	21	77	11	65	76	1	17	4	1.04
3980301--3980325	13	1.9	13	100	0	50	48	8	0	44	1.32
3983058--3983120	26	2.4	27	81	5	74	42	9	15	31	1.79
3983167--3983245	26	3.1	26	85	8	117	44	12	8	34	1.74
3983177--3983256	26	3.1	26	85	5	99	50	12	6	31	1.65
3983311--3983388	27	2.9	28	83	5	81	46	11	12	29	1.77
3983311--3983387	28	2.9	27	80	5	75	46	11	12	28	1.77
3983330--3983394	28	2.6	25	77	17	71	49	10	10	29	1.71
3984353--3984397	22	2.0	22	86	0	63	51	2	0	46	1.13
3984363--3984409	22	2.1	22	84	0	58	40	4	2	53	1.32
3995257--3995326	5	13.8	5	77	14	56	24	1	0	74	0.90
3999140--3999183	21	2.2	19	84	8	52	54	0	0	45	0.99
4002402--4002440	19	2.0	20	90	5	62	71	7	0	20	1.10
4003737--4003781	19	2.3	20	88	3	65	60	15	8	15	1.59
4012558--4012595	15	2.6	15	87	4	51	84	0	2	13	0.73
4013415--4013489	23	3.3	23	78	17	68	57	2	1	38	1.21
4014060--4014131	28	2.5	28	70	14	67	40	1	1	56	1.16
4016692--4016758	21	3.2	20	75	8	62	34	16	13	35	1.88
4016701--4016767	21	3.2	20	75	8	62	31	19	14	34	1.92
4017248--4017364	28	4.2	28	82	2	137	25	15	24	34	1.95
4017247--4017364	56	2.1	57	82	7	152	26	15	24	33	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4017261--4017385	28	4.4	27	82	7	124	24	17	25	32	1.97
4017413--4017491	33	2.4	32	78	6	86	36	12	20	30	1.90
4022445--4022505	12	5.1	12	75	22	58	62	0	3	34	1.12
4023241--4023309	36	1.9	35	85	5	93	68	7	2	21	1.28
4023691--4023725	16	2.2	16	90	5	54	37	0	8	54	1.31
4023699--4023742	16	2.8	16	85	0	61	31	4	11	52	1.57
4060824--4060880	25	2.2	26	84	9	73	54	0	5	40	1.23
4060843--4060889	25	1.9	25	91	4	78	48	0	2	48	1.13
4063245--4063385	4	35.2	4	76	0	129	43	2	4	49	1.36
4063245--4063385	10	14.1	10	78	0	129	43	2	4	49	1.36
4063247--4063384	26	5.4	25	73	15	95	42	2	5	50	1.36
4068606--4068637	15	2.2	15	94	5	57	31	6	0	62	1.20
4077111--4077153	18	2.4	19	85	14	56	13	23	0	62	1.31
4077857--4077891	18	1.9	18	88	0	52	57	5	2	34	1.37
4077881--4077922	15	2.8	15	85	0	57	59	7	0	33	1.25
4085528--4085565	19	2.0	19	100	0	76	26	0	31	42	1.56
4086228--4086263	10	3.6	10	84	0	54	25	2	22	50	1.63
4090887--4091050	77	2.1	76	86	3	231	42	12	6	39	1.67
4114417--4114449	16	2.1	16	100	0	66	36	6	18	39	1.75
4121126--4121328	109	1.9	109	89	0	316	42	14	25	17	1.87
4137317--4137368	2	26.0	2	100	0	104	50	0	0	50	1.00
4138107--4138143	19	2.0	20	89	10	60	72	2	18	5	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4156407--4156466	30	2.1	29	84	6	77	48	21	1	28	1.60
4166809--4166852	2	22.0	2	100	0	88	50	0	0	50	1.00
4186788--4186816	9	3.0	10	90	10	51	41	0	6	51	1.28
4188243--4188274	16	1.9	17	93	6	57	18	0	6	75	1.01
4194025--4194049	13	1.9	13	100	0	50	48	8	0	44	1.32
4196546--4196743	98	2.0	97	89	7	303	45	12	14	28	1.80
4196865--4196947	34	2.4	34	81	0	103	33	24	16	25	1.96
4197313--4197346	17	2.0	17	88	0	50	44	8	32	14	1.76
4210946--4211010	31	2.1	31	83	8	80	36	9	3	50	1.50
4215544--4215820	38	7.5	37	81	6	285	41	19	15	23	1.89
4215592--4215811	74	3.0	72	82	7	257	40	21	15	21	1.90
4215568--4215821	112	2.3	112	84	6	320	41	20	15	22	1.90
4215558--4215820	74	3.5	73	77	11	248	42	20	14	22	1.89
4215785--4215866	41	2.0	41	80	4	94	46	13	10	29	1.77
4228188--4228243	15	3.7	15	72	6	51	23	5	1	69	1.18
4228586--4228620	3	11.3	3	93	6	61	34	0	0	65	0.93
4229108--4229148	19	2.1	19	86	4	55	7	26	0	65	1.18
4229123--4229153	14	2.1	15	94	5	55	6	25	0	67	1.14
4232807--4232866	24	2.7	22	80	10	68	75	0	0	25	0.81
4232804--4232858	17	3.2	17	73	2	56	74	0	0	25	0.82
4235442--4235512	29	2.4	29	83	4	88	23	11	19	45	1.83
4238283--4238330	22	2.1	24	84	7	64	8	18	0	72	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4238844--4238916	34	2.1	34	100	0	146	19	9	13	57	1.63
4239153--4239206	25	2.2	25	83	6	65	50	18	0	31	1.48
4240299--4240342	19	2.3	19	100	0	88	31	36	4	27	1.77
4244872--4244897	2	13.0	2	100	0	52	0	0	50	50	1.00
4248585--4248631	19	2.5	19	82	6	51	59	0	2	38	1.09
4251692--4251759	22	3.1	22	97	0	127	32	10	19	38	1.85
4253487--4253533	24	2.0	23	95	4	85	17	42	8	29	1.78
4255508--4255532	13	1.9	13	100	0	50	48	8	0	44	1.32
4273081--4273120	19	2.0	20	95	4	73	42	27	0	30	1.56
4282253--4282312	30	2.1	29	81	6	68	31	8	21	38	1.83
4290433--4290492	30	2.1	29	81	6	68	31	8	21	38	1.83
4304640--4304722	41	2.0	41	86	4	114	36	4	20	38	1.74
4311096--4311163	35	1.9	35	87	0	100	19	13	17	50	1.78
4332804--4332847	23	1.9	23	95	0	79	40	0	0	59	0.98
4332805--4332858	23	2.3	23	87	6	74	46	0	0	53	1.00
4332849--4333118	24	11.7	23	64	24	63	39	1	3	55	1.25
4333020--4333078	27	2.1	28	87	3	84	44	0	5	50	1.24
4332823--4333210	113	3.4	113	86	4	480	39	1	3	55	1.27
4333047--4333164	46	2.7	45	73	21	133	39	0	4	55	1.19
4332973--4333167	38	5.1	37	66	14	94	37	0	4	57	1.22
4332823--4333210	114	3.4	114	86	3	496	39	1	3	55	1.27
4332930--4333251	114	2.8	111	81	5	270	40	2	3	53	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4333294--4333355	27	2.2	28	85	2	81	43	3	1	51	1.27
4334108--4334139	2	16.0	2	100	0	64	50	0	0	50	1.00
4346325--4346383	28	2.1	28	84	12	77	22	22	22	33	1.97
4367405--4367461	26	2.2	26	78	6	62	47	0	3	49	1.18
4371296--4371329	2	17.0	2	100	0	68	50	0	0	50	1.00
4371954--4372187	104	2.2	104	95	0	414	39	13	13	33	1.84
4372126--4372253	37	3.4	36	76	8	96	41	14	13	30	1.84
4375820--4375857	19	2.0	19	100	0	76	31	0	26	42	1.56
4381045--4381091	20	2.3	20	88	0	67	42	25	2	29	1.67
4383054--4383128	36	2.1	36	87	0	105	46	9	6	37	1.62

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