genome.fa.s372.2.7.7.80.10.50.1000.1.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: Scaffold372
Parameters: 2 7 7 80 10 50 1000
Length:  1060101

Tables:   1   2   3   4   5   6   7   8   9   

This is table  1  of  9  ( 1049 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)
4934--4975	9	5.0	8	83	16	50	16	0	2	80	0.81
4934--4981	25	1.9	25	91	8	80	18	0	2	79	0.84
4971--5024	17	3.4	17	70	29	55	44	0	0	55	0.99
5722--5749	9	3.1	9	100	0	56	35	0	0	64	0.94
13250--13363	53	2.2	53	91	0	183	21	34	16	27	1.95
13268--13392	53	2.4	53	86	0	169	24	31	17	26	1.97
21864--22043	65	2.8	65	98	0	342	18	19	19	42	1.89
23071--23099	14	2.1	14	100	0	58	31	48	20	0	1.50
29056--29526	251	1.9	251	94	0	834	28	20	11	40	1.87
30231--30265	2	18.0	2	88	5	54	45	0	0	54	0.99
30681--30735	21	2.6	21	77	11	58	47	5	1	45	1.36
30685--30741	6	8.5	6	76	19	51	45	5	1	47	1.35
30878--30936	22	2.7	22	81	0	55	38	5	1	54	1.33
34380--34417	17	2.4	17	86	8	53	23	0	2	73	0.95
35220--35252	6	5.5	6	92	0	57	66	15	18	0	1.25
45330--45365	2	18.5	2	94	5	65	52	0	0	47	1.00
47339--47382	3	14.7	3	95	0	79	36	0	31	31	1.58
50214--50271	28	2.1	28	90	6	91	44	8	20	25	1.80
52766--52803	14	2.7	14	84	11	51	39	0	7	52	1.31
54216--54245	2	15.0	2	100	0	60	50	0	0	50	1.00
54992--55070	23	3.4	23	72	17	65	39	1	2	56	1.21
55014--55061	17	2.9	16	81	9	51	37	0	2	60	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56383--56443	31	2.0	31	87	6	88	36	11	8	44	1.71
56518--56566	20	2.5	18	78	18	53	28	6	4	61	1.38
57579--57622	5	8.4	5	94	2	61	38	45	15	0	1.47
61097--61123	3	9.0	3	100	0	54	33	33	0	33	1.58
61709--61741	3	11.0	3	100	0	66	33	0	0	66	0.92
62046--62110	18	3.3	18	70	25	51	52	1	6	40	1.36
62095--62154	31	1.9	31	83	6	77	48	1	3	46	1.28
62015--62169	21	7.4	20	70	22	88	51	1	5	41	1.35
62408--62466	21	2.8	21	78	14	59	52	10	3	33	1.52
62685--62759	28	2.7	27	78	13	66	60	4	1	34	1.24
63746--63773	2	14.0	2	100	0	56	50	0	0	50	1.00
66161--66196	2	19.0	2	88	11	58	50	0	50	0	1.00
69415--69483	22	3.2	20	78	15	68	30	4	2	62	1.29
69417--69462	20	2.2	20	84	3	56	30	4	2	63	1.26
69925--69954	2	15.0	2	92	0	51	50	3	0	46	1.18
72473--72501	14	2.0	15	93	6	51	48	3	0	48	1.18
72533--72593	29	2.1	29	90	0	95	44	3	4	47	1.41
72476--72608	16	8.6	16	70	14	82	49	5	2	42	1.37
76769--76808	2	20.0	2	94	0	71	47	0	0	52	1.00
77052--77100	9	5.6	9	82	4	55	77	0	22	0	0.77
77052--77100	13	3.7	13	77	2	53	77	0	22	0	0.77
77069--77103	18	1.9	18	94	0	61	80	0	20	0	0.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
77141--77180	20	2.0	20	85	0	53	52	0	0	47	1.00
77481--77520	15	2.5	16	88	8	55	57	0	0	42	0.98
77481--77523	16	2.6	17	85	10	63	55	0	0	44	0.99
77689--77757	32	2.2	32	84	5	86	52	1	2	43	1.25
77953--77989	12	3.2	12	96	3	67	29	0	0	70	0.88
78284--78340	30	1.9	30	85	7	80	24	3	5	66	1.28
78418--78461	19	2.3	19	80	7	54	25	0	2	72	0.96
78407--78475	26	2.7	27	73	8	72	34	0	1	63	1.03
79226--79318	28	3.2	27	76	17	80	47	1	0	51	1.07
79260--79325	28	2.3	28	76	10	71	50	0	0	50	1.00
87445--87480	2	18.0	2	88	0	54	50	2	2	44	1.31
88132--88164	2	16.5	2	100	0	66	0	48	0	51	1.00
92729--92759	2	16.0	2	93	6	55	48	0	0	51	1.00
93469--93528	3	20.0	3	96	0	111	31	0	1	66	1.01
98123--98171	3	16.3	3	91	0	80	65	4	0	30	1.11
98672--98704	14	2.4	14	94	0	57	0	12	0	87	0.53
100751--100805	2	30.0	2	81	17	66	43	0	0	56	0.99
106827--106875	2	25.5	2	79	8	57	46	0	4	48	1.20
107280--107343	32	2.0	33	84	3	85	56	3	1	39	1.25
108249--108283	10	3.5	10	88	0	52	8	0	91	0	0.42
114893--114917	2	12.5	2	100	0	50	52	0	0	48	1.00
117587--117617	3	10.3	3	92	0	53	32	0	3	64	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
119249--119281	5	6.6	5	86	13	50	42	0	0	57	0.98
119358--119395	16	2.4	16	86	4	51	52	2	5	39	1.38
119374--119441	22	2.9	24	78	12	70	50	5	5	38	1.51
119539--119593	17	3.3	16	74	5	56	60	5	1	32	1.30
129115--129151	2	19.0	2	88	5	58	54	0	0	45	1.00
143303--143327	2	12.5	2	100	0	50	52	0	0	48	1.00
145881--145928	3	16.0	3	95	0	87	33	2	0	64	1.05
150422--150463	3	14.7	3	85	9	61	28	2	0	69	1.01
151049--151080	2	16.0	2	100	0	64	50	0	0	50	1.00
158358--158387	2	15.0	2	100	0	60	50	0	0	50	1.00
158764--158797	2	17.0	2	100	0	68	50	0	50	0	1.00
159259--159290	15	2.1	16	88	11	50	34	25	6	34	1.81
163039--163088	25	2.0	25	96	0	91	42	8	18	32	1.79
164165--164217	3	17.7	3	100	0	106	66	0	0	33	0.92
167023--167064	15	2.9	14	83	13	50	38	2	0	59	1.10
168413--168454	21	2.0	21	86	13	61	40	0	0	59	0.97
168713--168751	19	2.1	19	85	0	51	35	10	12	41	1.77
168930--168986	17	3.4	16	79	15	71	36	0	0	63	0.95
169040--169083	23	2.0	22	86	8	63	61	2	0	36	1.09
169073--169101	14	2.0	15	93	6	51	75	0	0	24	0.80
169039--169091	25	2.2	23	80	6	61	62	1	0	35	1.06
169606--169646	18	2.3	19	88	12	61	56	0	0	43	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
170216--170258	17	2.5	18	77	11	54	44	0	4	51	1.22
170215--170258	18	2.6	17	82	7	54	43	0	4	52	1.22
170478--170537	27	2.2	28	84	3	77	40	0	3	56	1.16
173130--173155	13	2.0	13	100	0	52	23	46	0	30	1.53
177620--177659	15	2.5	16	88	8	55	57	0	2	40	1.12
177620--177662	16	2.6	17	85	10	63	55	0	2	41	1.12
178582--178616	18	2.1	18	89	10	56	71	5	2	20	1.19
178660--178692	12	2.6	13	80	9	50	54	0	3	42	1.15
178850--178894	17	2.7	17	83	12	58	60	2	4	33	1.29
178989--179042	4	14.8	4	88	7	64	0	18	0	81	0.69
179120--179152	3	11.0	3	100	0	66	66	0	0	33	0.92
181834--181920	7	12.7	7	90	2	133	24	14	33	27	1.95
181834--181920	21	4.2	21	95	2	151	24	14	33	27	1.95
185632--185674	2	21.5	2	90	0	68	46	2	0	51	1.13
187023--187056	18	2.0	16	88	11	50	26	17	29	26	1.98
190076--190106	14	2.2	14	94	0	53	19	16	16	48	1.81
192656--192682	6	4.5	6	100	0	54	14	29	18	37	1.91
197658--197693	12	3.0	12	100	0	72	41	0	0	58	0.98
201897--202003	53	2.0	53	90	0	169	17	22	13	46	1.82
204446--204501	29	1.9	29	82	7	69	73	0	21	5	1.03
207561--207619	19	3.0	21	81	13	65	59	0	0	40	0.97
207561--207622	20	3.1	20	82	15	67	59	0	0	40	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
207584--207636	19	2.8	19	83	11	65	58	0	0	41	0.98
208899--208937	3	13.0	3	100	0	78	66	0	0	33	0.92
209564--209629	27	2.4	27	78	16	73	42	4	0	53	1.21
209642--209680	17	2.2	17	90	9	60	30	0	0	69	0.89
210437--210464	2	14.0	2	100	0	56	50	0	0	50	1.00
211121--211156	2	18.0	2	100	0	72	50	0	0	50	1.00
211686--211714	2	14.5	2	100	0	58	51	0	0	48	1.00
214059--214084	2	13.0	2	100	0	52	50	0	0	50	1.00
214922--214946	2	12.5	2	100	0	50	48	0	0	52	1.00
215377--215432	26	2.2	25	77	3	58	53	7	3	35	1.46

Tables:   1   2   3   4   5   6   7   8   9