genome.fa.s220.2.7.7.80.10.50.1000.1.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: Scaffold220
Parameters: 2 7 7 80 10 50 1000
Length:  3999181

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   

This is table  1  of  19  ( 2201 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)
1837--1879	18	2.4	18	96	0	77	48	0	0	51	1.00
2431--2461	14	2.3	14	94	5	55	19	0	12	67	1.22
2431--2465	14	2.7	13	87	12	54	17	0	11	71	1.14
9151--9234	16	5.2	16	79	2	78	8	13	30	47	1.72
9150--9231	33	2.5	33	80	2	94	9	13	29	47	1.75
9733--9773	21	2.0	20	85	4	55	65	2	17	14	1.37
9838--9908	2	35.5	2	85	0	97	43	0	2	53	1.15
10585--10623	2	19.5	2	89	0	60	48	5	0	46	1.24
15783--15815	17	1.9	17	93	0	57	36	6	6	51	1.51
16029--16061	15	2.2	15	89	10	50	72	0	24	3	0.98
19487--19536	15	3.1	16	72	16	50	58	4	2	36	1.29
19497--19618	55	2.2	57	84	10	153	54	1	0	43	1.16
20896--20930	17	2.1	17	100	0	70	28	22	5	42	1.76
20981--21018	14	2.7	14	84	15	60	31	5	21	42	1.75
21724--21754	2	15.5	2	100	0	62	51	0	48	0	1.00
31506--31543	2	19.5	2	89	5	60	52	2	0	44	1.14
33623--33716	2	47.0	2	93	0	143	0	5	50	44	1.24
37592--37641	2	25.0	2	95	0	91	52	0	48	0	1.00
37639--37668	4	7.8	4	92	7	53	53	23	23	0	1.46
49723--49763	6	6.8	6	94	0	73	17	48	14	19	1.81
55870--55906	2	18.5	2	100	0	74	51	0	48	0	1.00
57197--57227	6	5.2	6	100	0	62	35	32	16	16	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
63400--63430	2	15.5	2	100	0	62	0	48	0	51	1.00
66175--66205	15	2.0	16	93	6	55	38	32	16	12	1.86
71139--71175	8	4.2	9	86	13	51	45	0	2	51	1.15
72364--72401	18	2.1	18	95	0	67	26	0	23	50	1.50
76483--76508	4	6.5	4	100	0	52	76	0	0	23	0.78
78269--78317	22	2.2	23	85	10	66	48	0	4	46	1.20
78481--78514	15	2.3	15	94	0	59	29	0	0	70	0.87
78524--78594	22	3.2	21	79	15	72	42	4	0	53	1.20
78648--78687	14	2.9	14	80	0	53	50	0	0	50	1.00
79049--79107	16	3.6	16	79	2	55	50	0	1	47	1.11
79064--79106	21	2.0	20	86	8	59	48	0	2	48	1.14
79085--79134	19	2.8	17	77	11	55	52	0	0	48	1.00
79261--79328	29	2.3	30	85	10	86	64	0	1	33	1.02
79670--79694	4	6.2	4	100	0	50	24	0	0	76	0.80
86070--86101	15	2.0	17	88	11	50	31	12	21	34	1.91
86182--86252	35	2.0	36	88	2	108	30	25	11	32	1.91
87310--87345	3	12.0	3	87	0	54	30	2	2	63	1.22
92187--92219	2	16.5	2	100	0	66	48	0	0	51	1.00
95577--95625	6	8.3	6	86	2	64	48	14	4	32	1.62
95581--95631	24	2.1	24	96	0	93	50	13	3	31	1.60
96112--96138	2	13.5	2	100	0	54	51	0	48	0	1.00
97046--97084	4	10.0	4	88	5	62	71	2	25	0	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
97423--97476	18	2.9	19	73	10	51	44	18	11	25	1.83
97584--97622	3	13.0	3	94	0	69	69	0	30	0	0.89
98208--98254	3	15.7	3	86	0	58	63	6	0	29	1.19
98788--98864	30	2.6	30	91	0	127	16	23	32	27	1.96
98786--98864	6	13.2	6	93	0	104	16	24	31	27	1.96
99309--99337	2	14.5	2	100	0	58	51	0	0	48	1.00
101195--101227	3	11.3	3	93	6	59	69	0	0	30	0.88
104760--104795	2	18.0	2	94	0	63	50	2	0	47	1.15
104993--105021	5	5.8	5	100	0	58	0	41	0	58	0.98
106949--106977	8	3.6	8	100	0	58	0	0	10	89	0.48
107118--107143	12	2.2	12	100	0	52	0	0	7	92	0.39
107117--107150	9	3.8	9	88	11	52	0	0	11	88	0.52
108311--108344	2	17.0	2	100	0	68	50	0	0	50	1.00
110559--110600	22	1.9	22	85	9	59	33	0	0	66	0.92
113242--113285	3	14.7	3	95	0	79	36	0	0	63	0.95
113394--113478	39	2.2	39	81	12	95	48	2	2	47	1.27
113622--113664	19	2.3	19	88	8	61	46	4	2	46	1.36
113622--113680	19	3.1	19	83	9	59	45	6	1	45	1.40
113786--113884	15	6.5	15	70	23	57	52	2	0	45	1.12
113771--113852	32	2.4	33	82	12	103	53	2	0	43	1.13
113786--113877	17	5.9	16	72	22	72	52	2	0	45	1.13
113979--114003	12	2.1	12	100	0	50	52	16	8	24	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
114559--114585	2	13.5	2	100	0	54	0	48	0	51	1.00
116316--116356	2	20.5	2	100	0	82	51	0	0	48	1.00
117183--117207	4	6.2	4	100	0	50	52	0	0	48	1.00
117663--117692	8	3.6	8	91	8	51	63	0	3	33	1.11
119543--119593	4	12.0	4	85	8	66	47	3	1	47	1.32
120183--120215	16	2.1	16	94	0	57	48	0	9	42	1.35
120199--120225	12	2.2	12	100	0	54	51	0	7	40	1.30
120920--121138	34	6.5	33	82	5	242	41	23	7	27	1.82
120920--121138	67	3.3	65	79	7	235	41	23	7	27	1.82
125520--125740	34	6.5	34	77	13	197	42	25	6	26	1.79
125523--125740	68	3.2	66	81	4	231	42	25	6	26	1.79
125522--125740	102	2.2	101	84	1	294	42	25	6	26	1.78
128944--128978	4	8.8	4	93	0	61	25	0	20	54	1.45
141771--141804	10	3.2	10	84	15	50	50	0	0	50	1.00
145388--145430	18	2.3	20	81	18	58	20	13	11	53	1.71
146371--146460	45	2.0	45	97	0	171	24	11	21	43	1.85
150179--150203	2	12.5	2	100	0	50	52	0	0	48	1.00
154816--154843	2	14.0	2	100	0	56	50	0	50	0	1.00
155132--155163	2	16.0	2	100	0	64	50	0	0	50	1.00
157285--157311	6	4.5	6	100	0	54	18	14	18	48	1.82
157562--157592	2	15.5	2	100	0	62	51	0	0	48	1.00
159257--159323	17	4.1	16	68	24	50	53	1	1	43	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
159900--159995	4	24.0	4	84	0	66	41	2	10	45	1.50
159909--159991	12	6.9	12	76	0	85	39	1	12	46	1.49
159896--159996	36	2.8	36	90	3	148	42	1	10	44	1.50
161425--161456	3	10.7	3	100	0	64	65	0	0	34	0.93
162570--162656	44	2.0	45	82	11	108	60	0	5	33	1.20
165588--165705	59	2.0	59	100	0	236	40	20	6	32	1.78
168214--168253	21	1.9	21	84	0	53	52	0	5	42	1.23
176192--176217	2	13.0	2	100	0	52	50	0	0	50	1.00
177348--177377	2	15.5	2	93	6	53	50	0	0	50	1.00
187521--187576	24	2.3	24	90	0	85	26	25	41	7	1.81
188349--188384	2	18.0	2	100	0	72	50	0	50	0	1.00
188876--188924	2	25.0	2	79	4	55	44	0	8	46	1.33
191396--191688	151	1.9	151	92	0	496	37	19	18	24	1.94
191965--192016	25	2.1	25	88	0	77	59	9	13	17	1.60
193081--193114	11	3.0	11	95	4	59	26	11	44	17	1.83
194658--194701	21	2.1	21	82	0	52	47	0	9	43	1.35
194664--194708	21	2.1	21	87	0	63	46	0	6	46	1.29
194675--194716	21	2.0	21	85	0	57	52	0	2	45	1.13
196027--196067	3	13.7	3	94	0	73	63	2	0	34	1.08
196699--196740	20	2.1	20	90	0	66	52	0	0	47	1.00
196909--196959	25	2.1	23	82	13	59	64	1	0	33	1.05
198665--198724	18	3.3	18	76	6	59	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
209926--209951	2	13.0	2	100	0	52	50	0	0	50	1.00
210345--210389	2	22.5	2	90	0	72	51	4	0	44	1.21
211120--211153	2	17.0	2	100	0	68	50	0	0	50	1.00
211338--211389	14	4.0	13	87	9	63	50	17	32	0	1.47
211338--211385	6	7.5	6	86	13	69	52	16	31	0	1.45
211603--211637	2	17.5	2	87	0	52	51	5	0	42	1.25
212396--212436	2	20.5	2	94	0	73	48	2	0	48	1.14
215297--215326	3	10.0	3	92	0	51	63	0	0	36	0.95
216953--217011	30	2.0	30	83	6	75	38	8	1	50	1.43
218830--218866	2	19.0	2	94	5	67	48	0	0	51	1.00

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19