genome.fa.s258.2.7.7.80.10.50.1000.9.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: Scaffold258
Parameters: 2 7 7 80 10 50 1000
Length:  5730937

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   

This is table  9  of  25  ( 2900 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)
1805397--1805423	4	6.8	4	100	0	54	74	0	25	0	0.83
1810903--1810962	18	3.3	18	71	19	52	43	0	0	56	0.99
1810978--1811051	11	6.8	11	72	20	50	35	0	0	64	0.94
1810978--1811080	34	3.1	35	75	14	101	37	0	0	60	1.10
1810928--1811077	17	8.9	17	66	19	57	38	1	1	58	1.15
1811304--1811367	28	2.3	29	76	17	73	28	1	0	70	0.97
1811507--1811617	57	2.0	56	92	1	186	17	18	20	43	1.88
1814001--1814030	3	10.0	3	92	0	51	36	0	33	30	1.58
1815584--1815611	8	3.5	8	100	0	56	71	0	14	14	1.15
1824340--1824390	2	23.5	2	88	7	66	45	3	3	47	1.40
1828133--1828164	2	16.0	2	100	0	64	50	0	0	50	1.00
1828915--1828952	2	19.0	2	94	0	67	47	50	2	0	1.15
1829909--1829933	2	12.5	2	100	0	50	52	0	0	48	1.00
1831439--1831467	10	3.0	10	95	5	51	48	0	0	51	1.00
1831812--1831844	17	2.0	17	88	5	50	57	0	0	42	0.98
1834880--1834925	23	2.1	21	88	8	65	56	0	2	41	1.11
1834878--1834926	11	4.4	11	82	5	62	57	0	2	40	1.10
1835678--1835726	23	2.1	23	92	0	80	42	0	2	55	1.11
1836601--1836641	17	2.4	18	84	15	52	41	0	7	51	1.30
1836638--1836673	17	2.1	17	89	0	54	58	0	0	41	0.98
1836705--1836743	19	1.9	19	85	10	51	58	2	2	35	1.25
1836751--1836782	12	2.4	14	85	15	50	53	0	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1842213--1842250	17	2.2	17	86	9	51	31	0	0	68	0.90
1842312--1842348	18	2.1	18	100	0	74	56	0	10	32	1.34
1846516--1846543	13	2.2	13	100	0	56	85	0	14	0	0.59
1847308--1847363	21	2.6	21	83	13	62	42	0	3	53	1.18
1847355--1847403	14	3.3	15	80	11	57	46	0	0	53	1.00
1847325--1847415	26	3.3	27	73	10	76	45	1	1	52	1.15
1847552--1847604	2	26.5	2	92	0	88	47	1	1	49	1.23
1848083--1848138	13	4.2	14	80	8	55	48	0	0	51	1.00
1848627--1848679	15	3.8	14	75	9	54	37	0	0	62	0.96
1848690--1848730	21	2.0	21	85	4	57	58	0	2	39	1.11
1848930--1848974	21	2.1	21	84	8	56	64	2	4	28	1.25
1849645--1849685	21	2.0	21	85	9	57	34	0	0	65	0.93
1849655--1849733	38	2.1	37	81	6	88	48	1	0	50	1.08
1851464--1851561	38	2.5	39	77	8	101	43	1	1	54	1.14
1854976--1855075	32	3.1	32	75	16	89	55	2	0	43	1.11
1854970--1855019	16	3.0	17	75	21	52	62	0	0	38	0.96
1856925--1856955	2	15.5	2	100	0	62	48	0	0	51	1.00
1860247--1860295	2	24.5	2	100	0	98	51	0	48	0	1.00
1860861--1860893	2	16.5	2	100	0	66	0	48	0	51	1.00
1863499--1863541	20	2.2	20	91	0	68	30	0	0	69	0.88
1863503--1863543	17	2.4	17	84	8	57	34	0	0	65	0.93
1863505--1863551	20	2.3	21	78	10	53	36	0	0	63	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1868545--1868577	12	2.6	13	85	4	50	3	12	0	84	0.72
1868624--1868651	1	28.0	1	100	0	56	0	0	100	0	0.00
1869045--1869081	16	2.1	19	85	14	53	45	0	0	54	1.00
1869158--1869188	16	1.9	16	93	0	53	45	0	3	51	1.17
1869324--1869376	20	2.8	20	81	16	67	1	20	0	77	0.87
1869507--1869546	21	1.9	21	90	10	64	52	2	0	45	1.14
1869991--1870028	12	3.2	12	82	17	53	26	13	0	60	1.33
1870364--1870397	13	2.6	13	80	0	50	52	0	0	47	1.00
1871013--1871050	17	2.1	19	90	9	62	39	0	0	60	0.97
1872658--1872700	23	1.9	23	90	4	70	48	0	0	51	1.00
1872657--1872711	23	2.4	22	81	6	65	52	1	0	45	1.11
1872696--1872737	12	3.3	13	80	12	52	61	2	0	35	1.09
1875360--1875391	16	2.0	16	93	0	55	53	0	0	46	1.00
1877014--1877198	34	5.5	34	87	3	257	40	26	7	25	1.82
1881264--1881326	19	3.3	19	90	0	90	34	19	17	28	1.94
1881628--1881810	34	5.4	34	86	3	244	40	26	7	25	1.81
1882364--1882398	3	11.7	3	100	0	70	65	0	0	34	0.93
1883482--1883530	23	2.1	23	85	7	64	38	0	0	61	0.96
1884701--1884728	2	14.0	2	100	0	56	50	0	0	50	1.00
1888458--1888496	14	2.8	14	88	11	62	79	0	20	0	0.73
1888458--1888490	13	2.5	13	95	5	57	81	0	18	0	0.68
1888460--1888494	17	2.0	18	88	5	54	82	0	17	0	0.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1892466--1892787	165	2.0	165	89	2	495	36	8	21	33	1.84
1903323--1903831	253	2.0	252	99	0	1009	33	15	22	28	1.94
1904000--1904035	17	2.1	17	89	0	54	69	0	0	30	0.89
1904225--1904259	10	3.6	10	88	7	54	0	11	0	88	0.51
1904226--1904259	15	2.2	16	94	5	61	0	8	0	91	0.43
1904349--1904483	44	3.0	44	96	2	243	12	31	17	38	1.87
1906695--1906753	29	2.0	29	83	6	75	57	1	1	38	1.19
1907354--1907448	29	3.3	29	75	7	77	52	1	1	45	1.14
1907754--1907805	19	2.6	20	75	9	52	55	0	3	40	1.18
1907844--1907902	15	3.8	15	74	12	57	44	1	0	54	1.10
1909766--1909807	17	2.6	16	84	3	57	47	2	2	47	1.28
1910113--1910153	17	2.4	17	83	0	55	46	0	0	53	1.00
1910557--1910606	18	2.7	18	78	9	55	60	6	0	34	1.21
1910950--1910991	3	14.0	3	100	0	84	66	0	0	33	0.92
1916566--1916613	19	2.6	18	80	6	60	35	0	2	62	1.07
1916558--1916625	17	4.1	16	70	20	50	33	1	2	61	1.20
1916935--1916985	23	2.4	21	83	9	59	45	0	3	50	1.20
1920988--1921050	33	1.9	32	81	9	74	58	3	3	34	1.30
1923364--1923391	2	14.0	2	100	0	56	50	0	0	50	1.00
1925227--1925273	21	2.2	22	88	7	71	34	8	0	57	1.29
1925572--1925651	22	4.0	20	78	10	65	61	0	0	38	0.96
1925597--1925641	22	2.0	23	91	4	74	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)
1927655--1927685	2	15.5	2	100	0	62	48	0	0	51	1.00
1937790--1938256	234	2.0	234	100	0	934	33	22	17	26	1.96
1938499--1938970	240	2.0	240	98	0	908	30	15	26	27	1.96
1940936--1941002	32	2.1	32	94	0	116	22	22	5	49	1.71
1961115--1961180	16	4.3	15	81	13	64	53	0	6	40	1.26
1967596--1967624	2	14.5	2	100	0	58	51	0	48	0	1.00
1974409--1974481	28	2.5	28	76	14	76	42	0	1	56	1.08
1974428--1974501	28	2.7	26	81	8	76	43	0	1	55	1.08
1976339--1976374	6	6.0	6	96	0	63	0	19	0	80	0.71
1980808--1980858	23	2.1	23	92	7	84	58	9	9	21	1.58
1984184--1984247	27	2.4	26	82	12	69	53	1	0	45	1.10
1984235--1984271	12	2.9	13	92	8	67	51	0	0	48	1.00
1985661--1985720	17	3.6	17	76	10	52	60	1	0	38	1.07
1986845--1986882	15	2.6	15	91	4	60	50	0	0	50	1.00
1986844--1986886	15	2.6	17	78	17	54	48	0	0	51	1.00
1987346--1987377	2	16.0	2	93	0	55	46	0	3	50	1.17
1988063--1988108	18	2.6	18	100	0	92	45	0	4	50	1.21
1988063--1988108	2	23.0	2	90	0	74	45	0	4	50	1.21
1988697--1988761	27	2.4	28	76	7	71	46	0	0	53	1.00
1988703--1988753	16	3.0	18	75	21	56	45	0	0	54	0.99
1989339--1989374	9	4.0	9	86	13	56	33	0	0	66	0.92
1996976--1997016	2	20.5	2	100	0	82	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)
1997053--1997086	15	2.3	15	90	10	52	35	0	5	58	1.22
1998290--1998333	22	2.0	21	91	4	70	36	4	6	52	1.49
1998286--1998388	23	4.4	23	77	9	93	38	5	5	49	1.51
2000577--2000612	15	2.2	17	90	9	58	25	19	8	47	1.77
2004081--2004106	3	8.7	3	100	0	52	30	0	0	69	0.89
2004933--2004985	5	10.6	5	78	8	54	1	18	1	77	0.96
2004933--2004980	20	2.4	21	89	6	73	0	20	2	77	0.88
2004947--2004987	20	2.0	20	90	0	64	2	14	4	78	1.03
2005651--2005676	3	8.7	3	100	0	52	69	0	0	30	0.89
2007456--2007490	6	5.8	6	100	0	70	48	17	0	34	1.47

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25