genome.fa.s116.2.7.7.80.10.50.1000.1.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: Scaffold116
Parameters: 2 7 7 80 10 50 1000
Length:  1263769

Tables:   1   2   3   4   5   

This is table  1  of  5  ( 557 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)
723--774	17	3.5	15	78	14	54	40	0	1	57	1.10
5931--5959	7	4.1	7	100	0	58	13	0	0	86	0.58
6827--6872	18	2.6	18	82	10	58	56	0	0	43	0.99
7294--7341	16	2.7	17	81	15	53	62	4	0	33	1.14
17196--17284	25	3.4	25	67	19	65	16	15	13	53	1.72
17944--17968	2	12.5	2	100	0	50	48	0	0	52	1.00
28858--28919	28	2.2	28	83	13	83	38	3	0	58	1.15
32375--32423	15	3.3	15	75	11	55	48	0	0	51	1.00
33028--33062	2	17.5	2	100	0	70	48	0	0	51	1.00
34765--34836	9	7.7	9	75	13	56	43	0	0	56	0.99
34789--34850	18	3.3	20	76	13	69	46	0	0	53	1.00
34756--34831	28	2.7	28	84	8	84	43	0	0	56	0.99
37867--37944	16	5.1	16	72	21	53	46	0	0	53	1.00
39113--39146	2	17.0	2	100	0	68	50	0	0	50	1.00
49669--49715	22	2.1	23	84	4	60	55	2	2	40	1.24
50215--50245	15	2.1	15	94	5	55	0	0	9	90	0.46
57122--57163	21	2.0	21	86	9	59	47	0	0	52	1.00
61231--61256	2	13.0	2	100	0	52	50	0	0	50	1.00
62415--62455	6	6.8	6	88	0	55	46	2	4	46	1.37
62415--62455	4	10.2	4	83	0	55	46	2	4	46	1.37
62415--62455	10	4.1	10	90	0	55	46	2	4	46	1.37
66476--66504	2	14.5	2	100	0	58	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
71065--71112	15	3.2	15	76	5	53	54	2	0	43	1.12
73678--73728	2	25.5	2	100	0	102	0	49	0	50	1.00
74305--74336	16	2.0	16	93	0	55	31	3	6	59	1.38
78257--78289	3	11.0	3	100	0	66	33	0	0	66	0.92
78936--78963	2	14.0	2	100	0	56	50	50	0	0	1.00
83861--83980	59	2.0	59	90	0	186	35	14	8	41	1.75
97545--97593	2	24.5	2	100	0	98	51	0	48	0	1.00
100099--100249	75	2.0	75	86	0	212	37	21	9	31	1.85
100666--100707	15	2.8	15	81	0	57	14	7	52	26	1.67
103519--103558	15	2.7	15	88	7	55	42	22	2	32	1.67
104597--104642	20	2.3	20	81	7	58	58	0	0	41	0.98
104585--104639	27	2.0	27	86	10	76	52	0	0	47	1.00
105888--105979	47	2.0	47	88	0	139	33	17	14	34	1.90
105998--106059	26	2.4	25	76	10	63	53	0	0	46	1.00
108062--108104	12	3.5	12	79	17	52	20	4	2	72	1.14
108182--108214	14	2.3	15	89	5	50	57	0	0	42	0.98
110617--110676	30	2.0	30	96	0	111	26	16	11	45	1.82
111252--111416	75	2.2	75	97	0	312	30	16	30	21	1.96
112357--112391	16	2.2	16	94	0	61	28	5	20	45	1.73
112328--112367	2	20.0	2	100	0	80	50	0	0	50	1.00
116472--116528	28	2.1	28	86	3	80	47	1	0	50	1.11
116558--116623	27	2.4	29	83	11	79	59	1	0	39	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
121880--121914	17	2.1	17	88	0	52	62	8	0	28	1.24
121876--121918	17	2.9	14	78	18	50	62	6	0	30	1.21
124017--124050	2	17.0	2	93	0	59	47	0	0	52	1.00
124747--124784	13	3.0	13	92	3	60	68	0	2	28	1.03
124746--124808	30	2.1	29	85	11	83	65	0	1	33	1.03
124760--124802	17	2.4	18	88	3	61	65	0	0	34	0.93
131450--131513	20	3.5	18	74	22	62	50	0	0	50	1.00
131504--131556	21	2.6	21	81	3	63	66	0	1	32	1.03
131450--131576	27	4.7	27	70	15	77	58	0	0	40	1.09
135141--135165	3	8.3	3	100	0	50	32	0	0	68	0.90
139361--139408	22	2.1	22	88	7	69	62	0	0	37	0.95
140142--140174	9	3.8	9	88	4	50	66	0	0	33	0.92
140109--140183	18	4.2	18	74	16	68	66	0	2	30	1.05
141076--141107	2	16.0	2	100	0	64	50	0	0	50	1.00
150436--150468	16	2.0	17	88	5	50	66	0	0	33	0.92
150451--150528	33	2.4	32	85	8	95	56	0	0	43	0.99
150476--150535	16	3.6	18	74	17	67	55	0	0	45	0.99
151353--151395	22	1.9	23	90	4	70	53	2	0	44	1.13
151355--151409	28	1.9	29	92	3	94	56	1	0	41	1.10
157395--157419	4	6.2	4	100	0	50	24	0	0	76	0.80
157878--157962	44	1.9	44	100	0	170	34	14	20	31	1.92
158260--158304	18	2.3	19	88	11	65	42	0	0	57	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
161023--161077	19	3.0	18	73	19	51	63	1	0	34	1.05
161024--161094	26	2.6	27	80	10	74	60	1	0	38	1.06
161056--161172	17	6.9	17	65	20	57	54	1	0	43	1.10
161770--161794	2	12.5	2	100	0	50	48	0	0	52	1.00
161914--161940	2	13.5	2	100	0	54	51	0	0	48	1.00
163106--163130	2	12.5	2	100	0	50	52	0	0	48	1.00
165448--165482	3	11.7	3	100	0	70	65	0	34	0	0.93
172274--172331	21	2.6	23	78	13	66	34	1	0	63	1.04
172289--172330	13	3.0	15	83	13	54	30	2	0	66	1.04
174459--174501	18	2.5	17	80	3	50	74	4	6	13	1.19
175937--175969	2	16.5	2	100	0	66	51	0	0	48	1.00
180928--180968	21	1.9	22	90	5	66	53	2	0	43	1.13
180960--180998	19	2.0	20	90	5	62	43	2	0	53	1.14
182620--182658	2	19.5	2	89	0	60	46	2	2	48	1.29
186526--186568	21	2.0	21	100	0	86	32	9	18	39	1.83
196051--196094	19	2.4	19	82	14	56	50	2	0	47	1.13
203881--203916	16	2.2	16	95	0	63	61	5	5	27	1.41
203881--203932	16	3.2	16	88	0	59	59	3	3	32	1.33
204006--204078	37	2.0	37	88	0	110	45	6	5	42	1.54
204049--204079	15	2.1	15	93	0	53	41	6	0	51	1.27
205526--206597	539	2.0	534	97	0	2009	25	15	19	39	1.91
209356--209394	19	2.0	20	85	5	53	46	0	0	53	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
210871--210910	2	21.0	2	90	10	66	47	0	0	52	1.00
211374--211663	139	2.1	139	89	1	440	27	13	11	47	1.77
212656--212694	19	2.1	19	85	4	53	48	2	20	28	1.62
212846--213427	148	3.9	146	84	8	710	35	12	18	33	1.88
212846--213412	299	1.9	298	89	1	886	35	12	18	33	1.88
218674--218736	6	11.2	6	75	16	55	61	0	1	36	1.05
218742--218780	19	2.1	19	90	4	62	41	0	0	58	0.98
219157--219205	23	2.2	23	85	10	66	42	2	0	55	1.11
220803--220832	14	2.1	15	93	6	53	46	0	20	33	1.51
220874--220949	22	3.5	22	77	10	66	64	0	0	35	0.94
221002--221054	26	2.0	26	85	7	70	64	1	0	33	1.05
220999--221043	23	2.0	22	86	4	63	66	2	0	31	1.04
222826--222884	13	4.6	13	71	12	59	54	1	0	44	1.10
223477--223511	15	2.3	15	90	0	52	25	17	14	42	1.86
224659--224689	2	15.5	2	100	0	62	51	0	0	48	1.00
228994--229032	2	19.5	2	100	0	78	48	0	0	51	1.00
229576--229600	5	5.0	5	100	0	50	80	20	0	0	0.72
232111--232150	21	1.9	21	90	10	64	62	0	5	32	1.17
232096--232149	11	4.9	11	80	6	56	61	0	3	35	1.14
237455--237481	2	13.5	2	100	0	54	51	0	0	48	1.00
239481--239551	16	4.6	16	67	16	51	45	1	0	53	1.09
244357--244497	68	2.1	68	98	1	275	28	17	24	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
244594--244773	87	2.1	87	89	7	278	25	11	17	46	1.80
252557--252664	54	1.9	54	81	9	128	47	11	19	22	1.80
253989--254034	23	2.0	23	87	8	67	34	2	2	60	1.21
256159--256200	14	3.0	14	89	0	57	57	0	0	42	0.99
261206--261250	21	2.2	21	88	4	65	44	8	0	46	1.34
261250--261300	16	3.4	16	72	22	56	62	0	0	37	0.95
274271--274365	46	2.1	46	97	0	181	29	21	18	30	1.97
280601--280635	2	17.5	2	93	0	61	48	0	51	0	1.00
281005--281070	17	3.9	17	72	21	59	53	0	1	45	1.09
295687--295720	2	17.0	2	100	0	68	50	0	0	50	1.00

Tables:   1   2   3   4   5