genome.fa.s59.2.7.7.80.10.50.1000.1.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: Scaffold59
Parameters: 2 7 7 80 10 50 1000
Length:  3999109

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   

This is table  1  of  25  ( 2913 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)
1351--1393	16	2.6	17	85	7	61	39	16	11	32	1.84
7940--7979	21	1.9	21	85	10	55	15	20	5	60	1.53
8425--8481	28	2.0	28	100	0	114	21	24	7	47	1.75
8699--8744	22	2.1	22	91	0	74	43	23	13	19	1.86
10722--10758	18	2.1	18	89	0	56	21	21	32	24	1.98
13500--13547	22	2.2	22	84	0	60	39	22	18	18	1.92
16164--16249	29	3.1	28	69	24	83	25	5	8	60	1.48
16144--16249	54	2.0	54	92	3	178	27	5	7	59	1.47
15675--16724	571	1.8	572	88	3	1630	44	5	21	29	1.73
23529--23555	2	13.5	2	100	0	54	0	51	0	48	1.00
23794--23821	2	14.0	2	100	0	56	50	0	0	50	1.00
25399--25430	2	16.0	2	100	0	64	50	0	0	50	1.00
30967--31125	16	9.9	16	74	15	125	44	1	1	52	1.20
30975--31025	27	2.0	25	92	7	84	49	1	0	49	1.12
30986--31082	27	3.4	28	78	13	99	46	1	2	50	1.20
30967--31082	59	2.0	59	86	3	162	46	0	1	50	1.17
31096--31134	18	2.2	18	90	0	60	33	2	2	61	1.23
31526--31593	32	2.1	32	86	0	91	41	4	1	52	1.30
34841--34866	1	26.0	1	100	0	52	0	0	100	0	0.00
44577--44689	37	3.1	37	77	2	111	26	20	19	33	1.96
45753--45780	2	14.0	2	100	0	56	50	0	0	50	1.00
45913--45944	16	2.0	16	93	0	55	53	0	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46446--46493	23	2.3	21	80	16	55	54	10	0	35	1.35
47183--47232	6	8.3	6	84	0	64	18	0	68	14	1.22
48481--48511	3	10.3	3	92	0	53	35	3	0	61	1.12
47883--48843	266	3.7	260	86	10	1260	43	10	4	41	1.60
52330--52377	21	2.2	22	85	3	62	54	2	2	41	1.24
52573--52617	21	2.1	21	83	0	54	44	0	6	48	1.29
56610--56645	6	6.0	6	90	0	54	52	16	0	30	1.44
58152--58185	2	18.0	2	88	11	54	50	0	0	50	1.00
58199--58234	4	9.0	4	100	0	72	50	0	25	25	1.50
64055--64083	2	14.5	2	100	0	58	48	0	0	51	1.00
64484--64509	2	13.0	2	100	0	52	50	0	0	50	1.00
66152--66194	22	2.0	20	82	8	50	60	2	0	37	1.10
66841--66885	4	11.2	4	85	0	54	42	0	8	48	1.34
66841--66885	6	7.5	6	89	0	54	42	0	8	48	1.34
66841--66885	10	4.5	10	85	0	54	42	0	8	48	1.34
67986--68030	20	2.1	21	84	12	56	28	0	6	64	1.19
68102--68153	10	5.2	10	77	6	52	46	0	0	53	1.00
68091--68182	31	3.3	29	72	23	74	45	0	0	54	0.99
68133--68183	16	3.1	16	83	10	68	49	0	0	50	1.00
70817--70850	2	17.0	2	100	0	68	0	50	0	50	1.00
72807--72844	6	6.5	6	88	11	53	84	0	15	0	0.63
73647--73682	3	12.0	3	100	0	72	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
82854--82895	2	21.0	2	85	0	57	50	7	0	42	1.30
83565--83590	2	13.0	2	100	0	52	50	0	0	50	1.00
92941--92979	21	1.9	21	84	5	53	35	0	7	56	1.28
93714--93739	2	13.0	2	100	0	52	50	0	0	50	1.00
97231--97260	15	2.0	15	93	0	51	6	3	50	40	1.45
106418--106458	2	20.5	2	94	0	73	51	2	0	46	1.14
112223--112253	4	7.8	4	100	0	62	22	0	51	25	1.48
116917--116958	2	21.0	2	100	0	84	50	0	0	50	1.00
118508--118581	30	2.4	30	82	17	89	45	2	0	51	1.15
118691--118735	20	2.2	20	84	7	56	46	2	0	51	1.13
118859--118901	22	2.0	22	86	9	61	44	2	0	53	1.13
118971--119023	21	2.8	20	81	13	58	50	1	1	45	1.23
119252--119287	18	1.9	19	94	5	65	58	0	0	41	0.98
126756--126786	2	16.0	2	93	6	55	51	0	0	48	1.00
127615--127653	6	6.5	6	100	0	78	33	0	66	0	0.92
127745--127780	3	12.0	3	100	0	72	33	0	0	66	0.92
128054--128084	2	15.5	2	93	0	53	48	0	3	48	1.17
128766--128791	2	13.0	2	100	0	52	50	0	0	50	1.00
129171--129280	32	3.6	32	69	17	90	60	1	0	37	1.14
129155--129263	27	4.2	27	77	13	97	59	1	0	37	1.14
133022--133049	2	14.0	2	100	0	56	50	0	0	50	1.00
133758--133792	16	2.3	15	90	5	52	20	2	2	74	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
137934--137992	30	2.0	28	81	15	66	62	0	3	33	1.12
137974--138016	13	3.4	13	87	3	61	74	4	0	20	1.00
138423--138447	2	12.5	2	100	0	50	52	0	48	0	1.00
138801--138829	2	14.5	2	100	0	58	48	0	0	51	1.00
139505--139544	2	20.0	2	100	0	80	50	0	0	50	1.00
141863--141905	2	21.5	2	90	0	68	48	4	0	46	1.22
145380--145410	2	15.5	2	100	0	62	51	0	48	0	1.00
149910--149945	2	18.0	2	100	0	72	50	0	0	50	1.00
154667--154702	6	5.8	6	90	3	54	38	0	27	33	1.57
154736--154765	5	6.0	5	100	0	60	20	20	20	40	1.92
157488--157516	15	2.0	15	93	6	51	44	0	0	55	0.99
158348--158517	31	5.5	30	82	2	151	30	15	22	32	1.95
158339--158510	62	2.8	61	77	7	184	30	16	22	30	1.96
160016--160042	2	13.5	2	100	0	54	48	0	0	51	1.00
160165--160201	2	18.5	2	100	0	74	51	0	0	48	1.00
162093--162119	2	13.5	2	100	0	54	0	0	51	48	1.00
162989--163013	2	12.5	2	100	0	50	48	0	52	0	1.00
167305--167340	5	7.2	5	100	0	72	0	19	0	80	0.71
168615--168674	27	2.2	27	78	0	66	35	6	8	50	1.59
168939--168963	5	5.0	5	100	0	50	40	0	0	60	0.97
170909--170938	1	30.0	1	93	0	51	0	3	0	96	0.21
174107--174133	2	13.5	2	100	0	54	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)
176402--176426	13	1.9	13	100	0	50	88	0	0	12	0.53
177309--177337	2	14.5	2	100	0	58	51	0	0	48	1.00
186279--186315	19	1.9	19	100	0	74	40	5	27	27	1.78
186672--186706	2	17.5	2	100	0	70	0	0	48	51	1.00
189972--189999	2	14.0	2	100	0	56	0	50	0	50	1.00
192925--192950	6	4.3	6	100	0	52	53	0	46	0	1.00
199124--199156	2	17.0	2	87	6	50	45	0	3	51	1.16
200273--200326	3	18.0	3	96	0	99	33	1	0	64	1.04
201561--201585	2	12.5	2	100	0	50	52	0	0	48	1.00
213814--213852	2	19.5	2	100	0	78	51	0	0	48	1.00
215066--215093	2	14.0	2	100	0	56	50	0	0	50	1.00
218244--218275	2	16.0	2	100	0	64	50	0	0	50	1.00
221285--221365	40	2.0	40	100	0	162	23	12	17	46	1.81
221824--221853	6	5.0	6	91	0	51	20	16	16	46	1.84
223031--223300	133	2.0	134	93	0	461	21	13	19	45	1.84
223700--223754	2	27.5	2	96	0	101	0	50	0	49	1.00
231390--231421	2	16.0	2	100	0	64	50	0	50	0	1.00
233725--233758	10	3.4	10	87	0	50	55	2	0	41	1.15
234977--235012	2	18.0	2	100	0	72	50	0	0	50	1.00
238452--238483	2	16.0	2	93	0	55	46	0	3	50	1.17
238742--238792	26	2.0	24	85	7	66	43	0	0	56	0.99
239881--239930	25	2.0	25	92	0	82	34	0	40	26	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
240357--240389	2	16.5	2	100	0	66	0	48	0	51	1.00
241075--241118	19	2.5	18	82	10	56	45	0	0	54	0.99
243361--243390	2	15.5	2	93	6	53	46	0	0	53	1.00
243937--243971	2	17.5	2	100	0	70	0	51	0	48	1.00
247124--247155	6	5.3	6	92	0	55	3	0	31	65	1.08
247416--247442	2	13.5	2	100	0	54	0	48	0	51	1.00
247678--247719	2	20.5	2	95	4	75	50	0	47	2	1.14
247812--247838	2	13.5	2	100	0	54	0	0	48	51	1.00
248052--248116	28	2.2	28	84	10	78	41	10	10	36	1.75
251376--251418	13	3.2	13	76	3	50	34	0	20	44	1.52

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