genome.fa.s4.2.7.7.80.10.50.1000.15.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: chr4
Parameters: 2 7 7 80 10 50 1000
Length:  31929104

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   

This is table  15  of  82  ( 9773 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)
4926529--4926627	19	5.1	19	66	9	74	20	17	41	21	1.90
4926525--4926627	38	2.6	40	87	6	149	19	16	41	22	1.90
4931635--4931660	13	2.0	13	100	0	52	53	0	23	23	1.46
4938290--4938464	67	2.6	67	86	4	239	35	25	13	26	1.92
4938323--4938464	35	4.2	32	75	9	140	36	26	13	23	1.92
4938853--4939045	73	2.6	73	80	9	191	18	21	20	39	1.92
4941182--4941238	27	2.1	27	80	6	62	33	21	8	36	1.84
4945773--4945909	35	4.1	32	77	11	114	34	25	14	25	1.94
4945811--4945909	32	3.0	33	79	7	128	35	26	15	23	1.94
4945741--4945909	67	2.5	67	86	3	225	36	24	13	25	1.92
4950598--4950622	12	2.1	12	100	0	50	60	0	0	40	0.97
4950703--4950793	37	2.5	37	94	0	155	20	38	17	23	1.93
4957704--4957747	22	2.0	22	95	0	79	34	22	11	31	1.90
4958906--4958947	21	2.0	21	90	0	66	33	19	28	19	1.96
4960381--4960520	60	2.3	60	86	0	199	31	22	18	27	1.97
4960381--4960546	60	2.8	60	75	9	167	30	22	19	27	1.98
4960826--4960875	2	24.5	2	95	4	91	50	2	0	48	1.12
4965287--4965332	20	2.3	20	96	0	83	45	21	4	28	1.71
4966912--4967194	139	2.0	140	92	2	471	48	7	21	23	1.74
4967829--4967875	20	2.3	21	85	7	62	21	0	12	65	1.25
4972573--4973011	111	4.0	108	77	9	404	33	19	22	24	1.97
4974401--4974444	10	4.7	9	81	18	54	4	18	2	75	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4975648--4975770	42	2.9	42	86	2	167	17	20	35	26	1.95
4975799--4975849	2	25.0	2	90	4	75	45	0	3	50	1.20
4986977--4987018	22	2.0	21	85	4	57	45	7	21	26	1.77
4987262--4987408	63	2.3	63	84	4	181	41	17	14	27	1.87
4989177--4989218	21	2.0	21	100	0	84	33	19	9	38	1.84
4998023--4998078	28	2.0	28	82	6	69	30	23	19	26	1.98
5005559--5005715	64	2.5	64	91	0	242	28	17	24	29	1.98
5008699--5008735	18	2.1	18	89	0	56	8	5	8	78	1.09
5015226--5015373	74	2.0	74	84	2	190	37	15	23	22	1.93
5023352--5023389	2	19.0	2	100	0	76	50	0	0	50	1.00
5029770--5029879	58	1.9	57	86	1	157	37	9	14	39	1.78
5073491--5073668	42	4.2	42	78	2	169	26	19	28	24	1.99
5073492--5073655	84	2.0	84	81	0	193	27	18	28	25	1.98
5073638--5073701	33	1.9	33	90	0	101	28	28	26	17	1.97
5095919--5095950	2	16.0	2	93	0	55	50	3	0	46	1.17
5103868--5103971	38	2.7	39	83	5	131	23	35	16	25	1.95
5109699--5109887	35	5.4	35	84	6	206	36	7	13	42	1.72
5109873--5109900	13	2.2	13	100	0	56	42	0	7	50	1.30
5110808--5110988	35	5.2	34	78	7	157	40	19	18	21	1.92
5110806--5110988	70	2.6	70	78	5	183	40	19	18	21	1.91
5134269--5134375	53	2.0	53	100	0	214	25	13	22	39	1.90
5137549--5137721	87	2.0	86	94	1	301	33	19	15	31	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5144259--5144355	48	2.0	48	100	0	194	31	24	10	32	1.89
5146376--5146819	47	9.4	47	82	5	452	28	17	32	21	1.96
5146477--5146557	23	3.5	23	65	9	56	28	20	30	19	1.97
5146327--5146819	94	5.2	92	81	4	513	27	17	31	22	1.97
5146374--5146819	141	3.2	140	81	3	513	28	17	32	21	1.97
5146329--5146817	188	2.6	188	85	1	622	28	17	31	22	1.97
5146734--5146814	24	3.4	23	66	17	67	25	18	33	22	1.97
5147353--5147605	31	8.2	31	90	1	303	25	18	18	37	1.93
5149265--5149589	156	2.1	156	83	2	402	32	17	20	30	1.95
5149944--5150271	31	10.6	31	81	2	363	23	16	20	39	1.92
5151807--5151885	17	4.9	16	77	10	81	35	8	2	53	1.46
5155451--5155532	31	2.6	31	92	0	128	32	20	18	28	1.96
5155517--5155591	23	3.3	23	88	0	114	28	33	16	22	1.95
5155964--5156083	63	1.9	63	82	3	152	33	16	29	20	1.95
5157131--5157197	35	1.9	35	84	3	91	26	10	26	35	1.89
5162368--5162416	2	24.5	2	100	0	98	48	0	0	51	1.00
5166052--5166112	31	2.0	31	86	0	86	16	24	13	45	1.83
5166080--5166141	25	2.5	25	83	0	79	16	22	12	48	1.80
5166206--5166248	22	2.0	22	95	0	77	11	37	11	39	1.78
5166763--5166825	32	1.9	34	83	6	85	6	30	4	58	1.43
5166885--5166938	21	2.5	21	77	11	56	3	20	5	70	1.23
5173176--5173221	21	2.2	20	84	7	56	15	21	6	56	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5173181--5173221	21	1.9	22	90	5	66	17	24	7	51	1.70
5174875--5174899	13	1.9	13	100	0	50	52	0	0	48	1.00
5175842--5175868	5	5.4	5	100	0	54	18	0	0	81	0.69
5187434--5187473	21	1.9	21	89	0	62	17	22	17	42	1.89
5198456--5198519	31	2.1	31	100	0	128	35	15	12	35	1.85
5199901--5199960	23	2.6	23	94	0	102	33	41	1	23	1.64
5199957--5200087	43	3.1	43	85	5	160	20	37	19	22	1.94
5200113--5200145	16	2.1	16	88	11	50	45	12	9	33	1.73
5201305--5201563	80	3.2	80	92	1	439	33	8	23	33	1.86
5202309--5202343	17	2.1	17	89	10	54	25	0	20	54	1.45
5231505--5231544	19	2.2	19	86	4	55	55	0	2	42	1.13
5231963--5232018	20	2.9	19	79	12	62	23	44	5	26	1.74
5234437--5234490	20	2.6	21	74	8	58	61	9	1	27	1.37
5235399--5235446	20	2.4	20	92	0	78	54	12	8	25	1.65
5238064--5238110	11	4.5	11	86	10	71	70	0	29	0	0.88
5238068--5238115	10	4.7	10	87	5	69	70	0	29	0	0.87
5239230--5239265	2	18.5	2	88	5	56	47	0	2	50	1.15
5239675--5239733	25	2.4	25	85	5	75	27	16	30	25	1.97
5251382--5251424	21	2.0	21	100	0	86	30	9	18	41	1.82
5255804--5255858	21	2.6	21	80	11	67	20	16	20	43	1.88
5262486--5262574	44	2.0	44	93	0	151	23	12	19	44	1.84
5268487--5268520	12	2.8	12	86	0	50	73	5	0	20	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5275543--5275573	2	15.5	2	100	0	62	48	0	0	51	1.00
5277054--5277122	23	2.9	23	76	4	57	46	17	10	26	1.79
5277105--5277177	27	2.7	27	82	0	83	39	20	9	30	1.84
5277225--5277300	26	2.9	27	82	7	93	36	25	13	25	1.92
5278029--5278085	21	2.7	21	81	10	71	26	12	17	43	1.84
5281251--5281417	60	2.8	60	83	0	199	23	19	23	32	1.97
5282504--5284124	251	6.5	252	75	8	1051	35	9	6	48	1.62
5282640--5283709	503	2.1	497	80	6	1200	35	9	6	48	1.62
5283854--5283887	18	1.9	17	88	5	50	47	0	2	50	1.16
5297968--5298074	54	2.0	55	92	1	180	22	46	14	16	1.83
5300153--5300225	2	36.5	2	83	0	92	47	2	5	43	1.40
5300153--5300225	16	4.6	16	87	0	110	47	2	5	43	1.40
5300227--5300267	20	2.0	21	85	4	57	31	2	24	41	1.68
5300277--5300395	42	2.8	42	88	6	177	23	17	35	23	1.95
5302153--5302215	33	1.9	33	90	0	99	22	12	17	47	1.81
5306248--5306272	13	1.9	13	100	0	50	44	0	8	48	1.32
5319339--5319396	2	29.0	2	96	0	107	48	0	1	50	1.11
5319810--5319861	2	26.0	2	100	0	104	50	0	0	50	1.00
5322234--5322298	28	2.3	29	84	5	80	44	10	6	38	1.64
5324228--5324375	43	3.4	43	81	3	156	25	18	35	20	1.95
5324374--5324441	20	3.5	20	85	2	93	26	2	38	32	1.71
5324446--5324479	12	2.8	12	86	0	50	41	5	8	44	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5330870--5330925	28	2.0	28	86	6	78	26	25	21	26	1.99
5332168--5332286	43	2.8	43	89	2	177	21	21	37	19	1.94
5332178--5332299	43	2.8	43	88	2	174	22	18	39	18	1.92
5332285--5332347	20	3.2	20	90	2	101	25	3	41	30	1.71
5335755--5335872	43	2.7	42	78	2	128	22	19	37	20	1.94
5335864--5335921	23	2.5	23	82	0	71	29	6	34	29	1.83
5341466--5341584	43	2.8	43	82	0	130	23	20	36	20	1.95
5341592--5341647	23	2.4	23	88	11	96	25	5	39	30	1.78
5345921--5345955	18	1.9	18	88	0	52	54	5	14	25	1.62
5346427--5346468	21	2.0	21	86	9	59	4	16	0	78	0.91

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