genome.fa.s132.2.7.7.80.10.50.1000.1.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: Scaffold132
Parameters: 2 7 7 80 10 50 1000
Length:  2458301

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   

This is table  1  of  15  ( 1722 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)
1623--1649	6	4.5	6	100	0	54	33	14	33	18	1.92
6087--6114	14	2.0	14	100	0	56	14	28	28	28	1.95
6752--6832	27	3.0	27	100	0	162	55	14	3	25	1.56
8303--8341	14	3.0	13	85	10	53	35	0	46	17	1.49
8496--8549	2	27.0	2	100	0	108	50	0	0	50	1.00
9959--10039	27	2.9	28	82	10	87	37	3	2	56	1.30
10071--10125	21	2.7	21	73	15	62	30	5	3	60	1.37
11072--11114	6	7.3	6	84	10	54	62	0	37	0	0.95
11065--11121	23	2.4	23	80	8	71	68	1	29	0	1.00
13800--13825	8	3.2	8	100	0	52	38	0	11	50	1.39
19067--19150	43	2.0	43	90	0	132	36	16	14	32	1.89
20939--20989	15	3.4	14	82	15	57	50	1	0	47	1.12
21334--21360	14	1.9	14	100	0	54	0	0	7	92	0.38
21798--21832	18	1.9	18	88	0	52	11	8	25	54	1.64
24676--24712	17	2.2	17	90	4	58	48	2	32	16	1.60
25305--25702	68	5.8	68	86	0	499	30	12	24	32	1.92
36012--36086	20	3.8	20	80	3	80	40	12	13	34	1.81
36009--36086	40	2.0	39	87	2	111	39	12	12	34	1.82
36696--37928	27	43.8	28	86	5	576	24	16	33	25	1.96
36671--37356	58	11.8	58	79	8	580	22	17	31	28	1.97
36696--37737	162	6.1	173	84	6	788	23	16	33	26	1.96
37292--38029	27	27.0	27	93	1	1179	27	14	34	23	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39032--39063	11	2.8	12	86	13	50	0	0	15	84	0.63
39339--39390	23	2.2	24	82	3	61	5	11	11	71	1.31
45481--45718	118	2.0	118	100	0	476	40	22	14	22	1.90
46490--46564	20	3.8	20	80	3	80	40	12	13	34	1.81
46487--46564	40	2.0	39	87	2	111	39	12	12	34	1.82
47405--47438	13	2.4	14	90	9	52	41	5	0	52	1.25
50261--50295	2	17.5	2	100	0	70	48	0	51	0	1.00
50565--50624	2	30.0	2	100	0	120	0	50	0	50	1.00
51144--51192	2	24.5	2	100	0	98	51	0	0	48	1.00
63004--63033	5	6.0	5	92	0	51	20	36	20	23	1.95
63159--63198	2	20.0	2	94	0	71	47	0	52	0	1.00
65028--65060	5	6.6	5	100	0	66	18	60	0	21	1.36
67504--67542	2	19.5	2	100	0	78	51	0	0	48	1.00
68533--68642	37	2.9	37	83	1	139	41	15	12	30	1.84
69224--69280	22	2.6	22	79	15	57	29	0	1	68	1.00
69763--69814	26	2.0	27	85	11	72	53	1	1	42	1.23
69819--69874	17	3.4	17	80	9	62	46	0	1	51	1.11
69835--69870	16	2.2	16	90	5	54	44	0	0	55	0.99
69910--69968	16	3.6	16	73	8	64	67	1	0	30	1.00
69876--70001	50	2.5	50	81	6	130	64	3	0	31	1.12
69912--70001	11	8.7	11	68	21	52	65	4	0	30	1.12
69896--69999	27	4.0	26	73	21	92	64	3	0	31	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
70385--70444	24	2.6	22	75	12	66	68	1	0	30	0.99
70513--70537	13	1.9	13	100	0	50	72	0	4	24	1.02
70742--70825	42	2.0	42	88	4	125	42	8	3	45	1.51
78246--78277	3	10.7	3	100	0	64	34	0	0	65	0.93
85102--85134	2	17.0	2	93	6	59	48	0	0	51	1.00
90170--90202	2	17.0	2	93	6	59	48	0	0	51	1.00
97266--97300	7	4.7	7	86	13	52	20	0	0	80	0.72
97564--97761	102	1.9	102	96	0	369	23	9	11	55	1.64
97603--97806	102	2.0	101	83	9	238	26	7	10	54	1.62
97997--98061	16	4.1	16	77	15	64	29	3	1	66	1.16
98001--98071	16	4.9	16	70	19	57	30	4	1	63	1.22
98176--98230	22	2.5	22	80	8	60	43	0	0	56	0.99
99518--99576	6	9.2	6	80	14	64	81	1	1	15	0.86
99520--99577	7	7.7	7	77	19	55	82	1	1	13	0.82
99497--99576	40	2.0	40	83	9	101	76	1	5	17	1.03
99532--99587	28	2.0	28	83	16	73	80	1	5	12	0.96
102416--102553	70	2.0	70	92	0	231	35	18	19	26	1.95
103015--103047	2	16.5	2	100	0	66	0	48	0	51	1.00
103777--103808	3	10.7	3	100	0	64	65	0	0	34	0.93
104133--104179	15	3.0	15	93	6	76	51	0	0	48	1.00
104129--104249	37	3.2	37	81	8	120	46	0	1	52	1.10
104149--104212	22	2.9	22	83	6	76	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
104139--104215	15	5.1	14	79	16	66	46	0	0	53	1.00
104828--104882	16	3.5	16	76	11	51	49	18	9	23	1.76
107681--107715	2	17.5	2	100	0	70	48	0	51	0	1.00
109988--110029	2	21.0	2	85	0	57	47	0	7	45	1.30
111480--111522	22	2.0	21	81	4	50	27	11	6	53	1.63
113582--113640	15	3.8	15	74	22	59	54	0	3	42	1.17
114594--114826	105	2.2	106	82	6	276	42	4	5	47	1.46
114768--114883	57	2.0	57	80	9	130	35	9	4	50	1.54
114684--114987	161	1.9	162	86	2	441	41	6	4	47	1.49
116256--116290	2	17.5	2	88	11	54	45	0	2	51	1.16
123311--123443	67	2.0	66	95	1	239	30	18	24	27	1.98
124918--125003	37	2.3	37	100	0	172	41	16	22	19	1.90
134265--134289	6	4.2	6	100	0	50	32	16	36	16	1.90
144208--144232	3	8.3	3	100	0	50	68	0	0	32	0.90
150578--150602	10	2.5	10	100	0	50	88	0	0	12	0.53
160985--161017	4	8.5	4	93	6	59	24	0	0	75	0.80
161125--161191	33	2.0	34	97	2	127	26	0	26	46	1.53
175034--175059	9	2.9	9	100	0	52	30	23	0	46	1.53
175874--175919	3	15.3	3	100	0	92	67	0	0	32	0.91
176763--176801	3	13.0	3	83	0	51	66	2	2	28	1.18
179306--179340	7	5.0	7	100	0	70	14	0	0	85	0.59
184330--184376	14	3.4	14	93	0	76	51	8	0	40	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
184325--184381	4	14.2	4	88	0	69	49	8	0	42	1.34
184325--184378	10	5.4	10	88	0	72	50	9	0	40	1.35
187283--187339	29	2.1	27	90	9	89	19	14	5	61	1.51
188848--188911	30	2.2	28	83	13	76	54	0	1	43	1.09
188906--188950	22	2.0	23	86	4	65	46	0	0	53	1.00
188916--188961	23	2.0	22	83	4	56	47	0	0	52	1.00
189786--189837	16	3.2	17	76	17	65	57	0	1	40	1.10
190155--190198	22	2.0	21	87	12	63	40	2	4	52	1.34
192522--192558	2	19.0	2	88	5	58	48	0	2	48	1.15
200872--200908	6	6.2	6	90	0	56	54	0	45	0	1.00
200991--201029	2	19.5	2	100	0	78	48	0	51	0	1.00
203837--203863	2	13.5	2	100	0	54	0	48	0	51	1.00
208164--208210	21	2.3	21	82	10	53	36	12	6	44	1.68
208208--208234	4	6.8	4	100	0	54	25	22	0	51	1.48
208232--208261	2	15.0	2	100	0	60	50	0	0	50	1.00
210932--210971	2	20.0	2	100	0	80	50	0	0	50	1.00
212975--213015	2	20.5	2	100	0	82	51	0	0	48	1.00
215275--215325	20	2.7	19	79	8	59	76	5	3	13	1.11
215267--215332	34	1.9	35	84	9	91	75	6	6	12	1.16
215263--215317	27	2.0	27	100	0	110	74	7	7	10	1.21
215928--215977	25	2.1	24	85	10	68	48	0	6	46	1.27
215942--215989	25	1.9	25	83	8	62	52	0	10	37	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
215941--215995	25	2.2	25	77	6	58	58	0	9	32	1.30
219749--219783	2	17.5	2	93	0	61	0	51	0	48	1.00
221856--221880	3	8.3	3	100	0	50	32	0	0	68	0.90
225035--225064	14	2.1	14	100	0	60	20	30	0	50	1.49
226502--226526	2	12.5	2	100	0	50	48	0	0	52	1.00
226531--226563	2	17.0	2	93	6	59	51	0	48	0	1.00
228895--228928	16	2.1	17	88	5	52	0	11	0	88	0.52
229097--229135	15	2.5	16	83	8	53	69	2	0	28	1.02
230476--230500	7	3.6	7	100	0	50	44	0	0	56	0.99
236376--236405	14	2.1	14	100	0	60	43	0	20	36	1.52

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15