genome.fa.s90.2.7.7.80.10.50.1000.1.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: Scaffold90
Parameters: 2 7 7 80 10 50 1000
Length:  1653315

Tables:   1   2   3   4   5   6   7   8   9   10   

This is table  1  of  10  ( 1200 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)
4383--4410	2	14.0	2	100	0	56	50	0	0	50	1.00
4410--4454	2	22.5	2	100	0	90	51	0	48	0	1.00
4501--4530	2	15.0	2	100	0	60	50	0	0	50	1.00
4597--4642	2	23.0	2	90	0	74	45	0	4	50	1.21
5091--5130	16	2.6	16	88	7	57	50	0	0	50	1.00
5495--5538	22	2.0	22	100	0	88	59	0	4	36	1.18
5567--5600	18	1.9	17	94	5	59	52	2	8	35	1.47
9650--9681	6	5.7	6	92	7	50	0	87	0	12	0.54
9853--9916	16	4.3	16	77	15	75	46	0	0	53	1.00
9854--9916	29	2.1	30	88	2	92	47	0	0	52	1.00
13145--13245	4	25.5	4	70	16	59	47	0	0	51	1.07
13191--13244	16	3.4	16	87	7	76	46	0	0	53	1.00
13367--13402	2	18.0	2	100	0	72	50	0	0	50	1.00
13459--13491	13	2.5	13	85	14	50	51	0	0	48	1.00
14332--14370	19	2.1	19	85	9	53	58	10	23	7	1.56
14415--14469	21	2.4	24	74	25	64	43	0	0	56	0.99
14487--14540	13	4.2	13	78	4	56	48	1	1	48	1.23
14613--14659	12	3.8	12	82	17	53	46	0	0	53	1.00
14594--14687	14	7.3	14	75	17	80	48	0	0	51	1.00
14601--14671	26	2.8	25	85	10	92	52	0	0	47	1.00
14605--14676	7	10.4	7	72	8	58	50	0	0	50	1.00
17150--17186	14	2.5	15	91	4	58	67	0	0	32	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17757--17794	11	3.5	11	85	3	51	71	0	2	26	1.00
18382--18447	29	2.4	27	81	13	82	48	0	0	51	1.00
26968--26993	13	2.0	13	100	0	52	38	15	15	30	1.88
26947--27013	34	2.0	33	91	2	107	44	13	16	25	1.84
27104--27180	21	3.7	21	89	3	111	35	16	12	35	1.88
27710--27920	118	1.8	115	80	12	250	39	14	26	20	1.90
27908--30414	59	43.2	59	89	3	3464	24	20	28	25	1.99
28430--28520	29	3.2	29	66	20	84	23	17	30	28	1.97
29537--29622	29	3.1	29	67	21	83	22	19	30	27	1.98
31383--31435	21	2.5	21	87	6	81	0	5	7	86	0.69
31388--31428	8	5.1	8	88	8	57	0	2	9	87	0.62
31382--31435	13	4.4	12	81	9	56	0	5	7	87	0.68
37630--37799	79	2.2	78	81	3	198	32	17	26	24	1.96
37753--37822	28	2.5	27	84	6	86	25	18	32	22	1.97
37810--37980	52	3.3	51	77	8	175	32	13	25	29	1.94
37702--38149	212	2.1	211	85	4	600	31	13	26	28	1.94
37963--38035	27	2.7	27	87	6	94	21	21	31	24	1.98
37675--38089	107	3.9	104	72	12	286	30	15	26	27	1.96
38026--38144	51	2.3	53	85	4	152	33	11	23	31	1.91
40510--40535	13	2.0	13	100	0	52	38	15	15	30	1.88
40489--40555	33	2.0	33	88	0	98	43	16	14	25	1.86
41271--41828	55	10.0	55	84	6	633	24	20	27	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42848--42894	12	4.2	11	83	10	60	2	4	6	87	0.74
42838--42894	14	4.1	13	80	19	62	1	5	7	85	0.78
55322--55504	79	2.3	79	81	1	197	32	18	26	22	1.97
55459--55530	28	2.6	28	88	0	99	23	19	34	22	1.96
55385--55584	107	1.9	108	82	3	260	30	16	26	27	1.96
55518--55688	52	3.3	51	79	7	157	31	13	25	29	1.94
55488--55830	184	1.9	185	86	3	503	32	13	25	28	1.93
64104--64175	28	2.6	27	86	8	92	23	18	34	23	1.96
64164--64390	52	4.4	51	81	7	253	32	11	25	30	1.92
64164--64392	102	2.2	105	86	4	306	32	11	25	30	1.91
66200--66231	15	2.1	15	94	5	55	0	0	12	87	0.54
66763--66788	13	2.0	13	100	0	52	38	15	15	30	1.88
66742--66808	34	2.0	33	91	2	107	44	13	16	25	1.84
66899--66975	21	3.7	21	85	3	102	35	15	12	36	1.86
68021--68686	219	3.0	218	86	4	935	41	8	10	40	1.69
71857--71923	35	1.9	36	85	11	95	53	0	0	46	1.00
72770--72801	2	16.0	2	93	0	55	46	0	0	53	1.00
73980--74020	21	2.0	21	85	0	55	68	0	9	21	1.18
74917--74978	23	2.7	24	73	9	67	43	1	1	53	1.20
74987--75040	19	2.9	19	72	8	58	55	0	1	42	1.10
75623--75666	20	2.1	21	87	8	63	54	9	0	36	1.32
76075--76125	17	2.8	18	82	8	59	49	0	1	49	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
76101--76164	20	3.2	20	90	0	101	50	3	0	46	1.17
76098--76176	20	4.0	20	77	11	83	45	3	0	50	1.19
78860--78919	27	2.2	27	78	0	66	45	1	3	50	1.28
80696--80722	1	27.0	1	100	0	54	0	0	0	100	0.00
81129--81161	14	2.4	14	90	10	50	66	0	0	33	0.92
81377--81403	11	2.5	11	100	0	54	81	0	0	18	0.69
81590--81837	124	2.0	124	96	0	460	35	19	21	22	1.96
82866--82904	2	19.5	2	100	0	78	51	0	0	48	1.00
84257--84300	22	2.0	22	90	0	70	45	0	0	54	0.99
84562--84595	3	11.3	3	100	0	68	67	0	0	32	0.91
86711--86746	17	2.1	17	100	0	72	36	11	16	36	1.84
87493--87554	25	2.4	25	81	13	63	53	0	1	45	1.10
87506--87560	17	3.4	17	76	14	53	58	0	0	41	0.98
87490--87548	17	3.2	18	76	13	59	49	0	1	49	1.11
90347--90469	15	8.1	15	67	17	67	32	0	0	65	1.04
90392--90452	19	3.2	19	77	9	61	34	1	1	62	1.15
90399--90464	32	2.1	32	85	5	89	28	1	1	68	1.08
90423--90504	24	3.4	24	74	12	80	26	2	2	68	1.15
91245--91276	11	2.8	12	81	18	50	31	0	0	68	0.90
91348--91398	19	2.8	18	82	11	52	58	0	0	41	0.98
91590--91636	21	2.1	22	88	7	69	48	10	0	40	1.38
93156--93194	19	2.0	20	85	14	55	61	0	0	38	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
95210--95255	24	1.9	24	82	8	58	54	8	0	36	1.32
95631--95695	6	11.5	6	70	18	50	36	0	0	63	0.95
95617--95654	13	2.9	14	84	7	53	36	0	0	63	0.95
95626--95670	22	2.0	23	82	4	56	33	0	0	66	0.92
95633--95729	28	3.5	28	76	5	81	44	0	0	55	0.99
97241--97280	20	2.0	20	85	9	55	35	0	0	65	0.93
97833--97861	14	2.0	15	93	6	51	0	17	0	82	0.66
98336--98408	11	6.7	11	74	10	62	69	4	2	23	1.18
98360--98408	17	2.9	17	75	3	55	69	2	2	26	1.10
98334--98402	23	3.1	22	76	14	61	69	4	2	23	1.20
98512--98537	13	2.0	13	100	0	52	0	15	0	84	0.62
98611--98699	10	9.2	10	69	16	55	59	3	2	34	1.26
98664--98709	24	2.0	23	86	4	65	58	0	2	39	1.10
98773--98815	20	2.2	20	91	4	70	55	2	0	41	1.12
99262--99295	15	2.4	14	90	9	59	35	0	0	64	0.94
99355--99391	2	18.5	2	94	0	65	48	0	2	48	1.15
111586--111666	15	5.2	15	71	8	56	53	0	2	44	1.14
113151--113185	17	2.0	17	88	5	52	31	8	5	54	1.54
114683--114719	10	3.8	10	89	3	58	81	0	18	0	0.70
114685--114719	9	3.8	9	88	7	52	82	0	17	0	0.66
116099--116134	15	2.3	16	95	4	65	69	0	0	30	0.89
116243--116283	17	2.3	18	80	12	50	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)
116393--116420	13	2.2	13	100	0	56	39	14	0	46	1.44
116438--116468	2	15.5	2	100	0	62	48	0	0	51	1.00
116961--116992	16	1.9	17	93	6	57	37	18	0	43	1.51
117550--117608	17	3.6	16	75	25	61	42	0	0	57	0.98
118224--118258	17	2.1	17	88	0	52	71	8	0	20	1.11
119128--119389	111	2.3	113	86	9	354	54	1	1	41	1.20
119362--119414	23	2.3	23	87	3	72	60	5	3	30	1.37
119195--119414	111	2.0	110	85	4	300	55	2	2	40	1.27
127172--127228	1	57.0	1	78	0	60	1	0	8	89	0.55
127171--127229	15	4.1	15	78	14	70	1	0	11	86	0.65

Tables:   1   2   3   4   5   6   7   8   9   10