genome.fa.s142.2.7.7.80.10.50.1000.1.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: Scaffold142
Parameters: 2 7 7 80 10 50 1000
Length:  1427168

Tables:   1   2   3   4   5   6   7   8   

This is table  1  of  8  ( 953 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)
8--2602	7	360.4	7	79	13	2038	39	45	11	3	1.57
1779--1812	18	1.9	17	88	5	50	41	47	2	8	1.50
1684--2800	7	159.6	7	80	9	730	39	49	5	4	1.47
3495--3536	20	2.1	20	91	8	68	28	0	23	47	1.52
11009--11038	15	2.0	15	93	0	51	36	26	0	36	1.57
11054--11101	21	2.3	22	79	17	57	35	31	8	25	1.85
11095--11157	21	3.0	21	90	0	99	39	34	9	15	1.80
11541--11569	13	2.1	14	93	6	51	37	34	0	27	1.57
11677--11735	30	1.9	31	83	10	77	45	11	5	37	1.63
12088--12142	23	2.5	22	81	3	65	30	0	21	47	1.51
12132--12193	19	3.2	19	81	6	70	27	1	25	45	1.63
12138--12209	32	2.2	32	80	7	83	29	1	27	41	1.64
12290--12329	14	2.9	14	96	0	71	20	5	35	40	1.74
13012--13060	2	25.0	2	87	4	73	0	44	4	51	1.20
14088--14120	11	2.8	12	82	17	50	36	45	9	9	1.68
14088--14121	13	2.8	13	86	13	54	38	44	8	8	1.67
19204--19229	2	13.0	2	100	0	52	0	0	50	50	1.00
22790--22829	2	20.0	2	100	0	80	50	0	50	0	1.00
27268--27413	64	2.3	64	76	0	157	25	11	24	38	1.89
36471--36513	22	2.0	23	86	9	63	37	16	2	44	1.60
42594--42913	59	5.5	57	75	9	162	28	10	12	49	1.72
42486--42998	118	4.4	117	75	8	305	27	11	13	47	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42575--42913	177	1.9	175	79	8	375	28	9	12	49	1.71
52680--52799	52	2.3	52	86	0	159	30	12	11	45	1.78
54979--55167	97	1.9	97	81	2	227	29	20	11	39	1.87
56820--56871	20	2.6	19	77	14	52	44	1	0	53	1.11
57140--57204	17	4.0	17	74	18	50	41	1	1	55	1.18
57167--57235	37	1.9	35	85	5	93	40	0	1	57	1.07
57255--57320	2	34.5	2	76	14	59	46	1	3	48	1.26
57431--57483	21	2.5	21	87	6	72	60	0	0	39	0.97
65718--65753	3	12.0	3	93	0	63	0	33	36	30	1.58
71369--71701	165	2.0	165	84	2	436	36	13	22	27	1.92
72081--72165	41	2.1	41	100	0	170	18	11	18	50	1.77
74538--74564	2	13.5	2	100	0	54	48	0	51	0	1.00
77733--77786	2	28.0	2	83	7	67	53	1	44	0	1.11
77733--77798	12	5.3	13	87	7	59	56	3	40	0	1.15
80207--80256	24	2.0	25	92	3	84	52	0	2	46	1.12
80417--80471	3	18.3	3	92	0	92	32	3	0	63	1.12
80922--80946	2	12.5	2	100	0	50	48	0	52	0	1.00
88635--88668	2	17.0	2	100	0	68	50	0	0	50	1.00
94448--94502	27	2.1	27	86	6	78	54	0	12	32	1.38
95159--96123	481	2.0	481	99	0	1903	44	10	6	37	1.66
96084--96288	114	1.8	113	80	10	253	36	21	6	35	1.79
96714--96762	21	2.6	18	81	12	53	55	0	0	44	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
96746--96780	14	2.3	15	90	9	54	60	0	0	40	0.97
96733--96874	34	4.2	33	71	14	94	54	0	0	43	1.10
97038--97082	21	2.1	21	84	8	56	31	2	2	64	1.18
97739--97816	40	2.0	39	82	9	97	24	3	8	62	1.41
97897--97937	17	2.6	17	81	11	52	46	0	0	53	1.00
98641--98679	10	3.7	10	83	10	51	71	2	0	25	0.98
98769--98838	24	3.0	23	77	8	70	68	5	0	25	1.11
98767--98855	24	3.8	23	73	18	67	68	4	0	26	1.08
98795--98832	12	3.1	13	81	11	53	68	2	0	28	1.03
98787--98842	24	2.4	25	82	11	73	66	3	0	30	1.09
100386--100421	15	2.4	15	90	0	54	38	2	2	55	1.29
101631--101680	22	2.3	21	83	6	64	48	0	2	50	1.12
101641--101692	22	2.5	20	74	22	52	40	0	1	57	1.10
101735--101771	5	7.4	5	87	0	56	18	37	18	24	1.94
113667--113701	2	17.5	2	100	0	70	51	0	48	0	1.00
121017--121060	15	2.9	15	80	12	54	47	0	0	52	1.00
130780--130804	2	12.5	2	100	0	50	52	0	0	48	1.00
132763--132795	17	1.9	17	93	0	57	15	12	0	72	1.12
133004--133080	27	3.0	27	78	17	83	51	0	0	48	1.00
132997--133090	33	2.7	34	76	14	95	48	0	0	51	1.00
133394--133432	12	3.2	12	88	0	51	46	7	0	46	1.31
142166--142194	2	14.5	2	100	0	58	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)
146926--146956	2	15.5	2	93	0	53	48	0	3	48	1.17
147401--147435	2	17.5	2	93	0	61	48	0	2	48	1.16
149053--149112	26	2.3	27	80	11	70	45	0	5	50	1.23
150422--150473	19	2.7	20	85	11	72	59	1	0	38	1.08
151880--151905	6	4.3	6	100	0	52	0	30	0	69	0.89
153952--153994	2	21.5	2	95	0	77	0	48	0	51	1.00
160939--160964	2	13.0	2	100	0	52	0	0	50	50	1.00
161920--161949	2	15.0	2	100	0	60	50	0	0	50	1.00
162885--162934	2	25.0	2	87	0	73	0	6	50	44	1.26
164774--164816	12	3.5	12	81	6	50	83	2	9	4	0.87
168973--169007	18	1.9	18	94	0	61	62	8	2	25	1.38
172315--172357	21	1.9	24	86	13	65	39	13	20	25	1.90
174361--174431	33	2.2	32	84	2	88	53	0	0	46	1.00
174366--174449	44	1.9	44	83	9	109	55	0	0	44	0.99
174881--174906	2	13.0	2	100	0	52	50	0	0	50	1.00
180494--180528	2	17.5	2	93	0	61	54	0	45	0	0.99
186096--186141	2	23.0	2	100	0	92	0	50	0	50	1.00
186141--186170	2	15.5	2	93	6	53	46	0	0	53	1.00
188965--188999	2	17.5	2	100	0	70	0	0	48	51	1.00
196764--196805	2	21.0	2	100	0	84	50	0	0	50	1.00
199266--199298	13	2.3	15	90	10	52	78	6	12	3	1.04
200378--200415	19	2.1	19	85	5	51	68	7	0	23	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
200397--200427	14	2.1	15	94	5	55	61	6	0	32	1.21
200880--200934	3	18.3	3	100	0	110	67	0	32	0	0.91
205737--205793	5	11.4	5	90	0	51	45	42	1	10	1.49
215626--215654	2	14.5	2	100	0	58	48	0	0	51	1.00
218980--219022	6	7.0	6	86	5	50	32	20	13	32	1.92
219661--219687	13	2.1	13	100	0	54	29	25	0	44	1.54
223516--223554	2	20.0	2	94	5	71	0	48	0	51	1.00
228205--228252	2	24.0	2	100	0	96	0	50	0	50	1.00
231922--231962	21	1.9	22	85	14	59	48	2	34	14	1.57
237434--237461	1	28.0	1	100	0	56	0	0	0	100	0.00
238163--238220	29	2.0	29	83	6	73	50	0	0	50	1.00
238199--238241	22	2.0	22	86	9	61	55	0	0	44	0.99
239385--239422	18	2.1	18	100	0	76	28	23	26	21	1.99
242731--242812	27	2.9	27	85	5	101	31	23	26	18	1.97
244741--244785	2	22.5	2	100	0	90	0	51	0	48	1.00
247842--247869	2	14.0	2	100	0	56	50	0	0	50	1.00
248081--248112	4	8.0	4	100	0	64	50	0	25	25	1.50
248123--248166	2	22.0	2	100	0	88	50	0	50	0	1.00
251030--251056	2	13.5	2	100	0	54	51	0	0	48	1.00
252510--252542	16	2.2	16	89	10	52	30	0	0	69	0.88
262092--262127	18	2.1	18	90	10	58	36	0	0	63	0.94
264964--265006	20	2.2	20	87	4	61	25	2	2	69	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
265778--265803	2	13.0	2	100	0	52	50	0	0	50	1.00
272715--272744	3	10.0	3	100	0	60	66	0	33	0	0.92
280654--280690	19	1.9	19	94	0	65	43	8	2	45	1.47
280958--280986	2	14.5	2	100	0	58	48	0	0	51	1.00
282205--282240	2	18.0	2	94	0	63	47	0	0	52	1.00
283700--283744	21	2.2	21	84	4	65	53	0	0	46	1.00
284131--284163	2	16.5	2	100	0	66	51	0	0	48	1.00
284829--284866	20	1.9	20	89	10	60	44	0	0	55	0.99
285338--285398	28	2.1	30	85	11	83	72	4	3	19	1.18
286196--286226	2	15.5	2	100	0	62	51	0	0	48	1.00

Tables:   1   2   3   4   5   6   7   8