genome.fa.s125.2.7.7.80.10.50.1000.11.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: Scaffold125
Parameters: 2 7 7 80 10 50 1000
Length:  3608436

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

This is table  11  of  18  ( 2131 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)
1746688--1746727	12	3.4	12	93	3	64	45	0	55	0	0.99
1746896--1746929	4	8.2	4	87	6	50	0	47	5	47	1.26
1746998--1747046	3	16.3	3	91	8	82	0	32	0	67	0.91
1749110--1749156	21	2.4	19	75	10	51	40	0	0	59	0.97
1757885--1757913	2	14.5	2	100	0	58	48	0	51	0	1.00
1758669--1758754	42	2.0	43	82	13	106	32	1	0	66	1.00
1758698--1758756	27	2.2	27	85	11	86	33	0	0	66	0.92
1758694--1758754	8	7.4	8	76	18	54	32	0	0	67	0.91
1761629--1761689	21	2.9	21	87	0	77	29	13	37	19	1.90
1762910--1762947	2	19.0	2	94	0	67	50	0	2	47	1.15
1781119--1781159	18	2.3	18	87	4	57	53	0	2	43	1.13
1784987--1785049	28	2.2	28	78	10	67	50	4	4	39	1.44
1785240--1785283	2	22.0	2	100	0	88	50	0	0	50	1.00
1787845--1787903	19	3.2	19	76	21	54	62	1	0	35	1.05
1787869--1787974	27	3.8	27	71	24	76	54	3	0	41	1.18
1787955--1788002	18	2.5	19	83	16	64	66	0	0	33	0.92
1789746--1789800	24	2.3	23	79	14	58	30	0	1	67	1.01
1792037--1792086	20	2.4	22	78	18	61	60	0	0	40	0.97
1792375--1792451	24	3.0	24	75	23	68	54	1	0	44	1.08
1795149--1795180	2	16.0	2	100	0	64	50	0	0	50	1.00
1795301--1795378	29	2.7	30	80	5	81	48	1	3	46	1.28
1796989--1797064	35	2.1	38	83	11	97	36	1	0	61	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1801581--1801620	21	1.9	21	85	10	55	27	15	10	47	1.77
1802298--1802333	2	18.0	2	88	0	54	47	2	50	0	1.15
1804121--1804211	38	2.3	40	81	10	118	57	3	1	38	1.23
1804502--1804552	10	4.9	11	74	13	54	49	0	0	50	1.00
1804522--1804608	11	8.0	11	70	22	51	40	3	0	56	1.16
1805232--1805288	27	2.1	27	81	12	64	56	0	0	43	0.99
1805633--1805658	13	2.0	13	100	0	52	7	38	7	46	1.61
1805910--1805936	8	3.4	8	100	0	54	0	14	0	85	0.61
1809402--1809470	35	2.0	35	100	0	138	40	17	20	21	1.91
1813431--1813464	16	2.2	16	89	5	52	47	8	14	29	1.75
1813462--1813499	16	2.4	17	82	13	53	55	7	0	36	1.29
1817813--1817846	16	2.1	17	94	5	61	50	0	0	50	1.00
1823973--1824004	15	2.1	15	94	0	55	50	9	34	6	1.60
1824231--1824279	24	2.0	25	88	4	73	65	2	4	28	1.22
1825812--1825846	18	1.9	18	88	0	52	40	5	14	40	1.69
1833250--1833289	21	1.9	21	90	10	64	57	0	0	42	0.98
1839142--1839185	20	2.2	20	100	0	88	45	13	9	31	1.75
1843668--1843789	64	1.9	66	83	13	164	50	1	1	46	1.21
1852193--1852221	2	14.5	2	100	0	58	51	0	0	48	1.00
1853702--1853729	2	14.0	2	100	0	56	0	50	0	50	1.00
1854107--1854141	2	17.5	2	100	0	70	51	0	0	48	1.00
1857408--1857462	22	2.7	22	78	16	73	56	3	0	40	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1861992--1862034	16	2.7	16	77	0	50	53	0	0	46	1.00
1864771--1864803	2	16.5	2	100	0	66	51	0	0	48	1.00
1868620--1868644	3	8.3	3	100	0	50	68	0	0	32	0.90
1870588--1870626	2	20.0	2	94	5	71	48	0	0	51	1.00
1872923--1872988	22	2.8	24	84	9	82	63	3	0	33	1.10
1873913--1873959	24	2.0	24	86	0	67	59	6	6	27	1.46
1875345--1875383	11	3.6	11	89	6	62	56	0	0	43	0.99
1878131--1878169	2	19.5	2	100	0	78	51	0	0	48	1.00
1883478--1883509	2	16.0	2	100	0	64	50	0	0	50	1.00
1886962--1887024	34	1.9	34	87	6	94	55	1	0	42	1.09
1891813--1891852	17	2.4	17	86	0	53	50	5	0	45	1.23
1891961--1891990	2	15.0	2	100	0	60	50	0	0	50	1.00
1892227--1892272	23	2.0	22	87	4	65	39	2	2	56	1.24
1892268--1892303	15	2.3	16	90	4	56	66	0	0	33	0.92
1892995--1893043	2	24.5	2	87	8	73	48	0	4	46	1.20
1898159--1898187	2	14.5	2	100	0	58	51	0	0	48	1.00
1899583--1899613	13	2.5	13	94	5	55	41	19	0	38	1.51
1900689--1900769	40	2.0	40	97	0	153	32	8	32	27	1.87
1900794--1900838	22	2.0	24	91	8	76	66	0	0	33	0.92
1909976--1910017	2	21.0	2	100	0	84	0	50	0	50	1.00
1910191--1910233	2	21.5	2	100	0	86	48	0	0	51	1.00
1910726--1910751	2	13.0	2	100	0	52	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)
1910472--1910979	266	1.9	268	88	2	779	33	12	16	38	1.85
1913675--1913719	15	3.1	15	81	15	58	57	0	0	42	0.98
1913762--1913795	16	2.1	16	100	0	68	23	29	17	29	1.97
1914915--1914944	2	15.0	2	100	0	60	50	0	0	50	1.00
1921481--1921572	17	5.5	15	73	25	62	63	0	0	36	0.95
1921481--1921589	21	5.1	21	70	19	75	61	0	0	38	0.96
1921481--1921655	5	36.2	5	68	17	68	61	0	0	38	0.96
1921495--1921569	18	4.2	19	77	14	79	62	0	0	37	0.95
1921481--1921571	34	2.6	34	77	14	105	63	0	0	36	0.94
1921496--1921569	27	2.8	26	75	13	80	63	0	0	36	0.95
1921496--1921629	30	4.3	31	75	17	98	60	0	0	39	0.97
1921618--1921660	23	1.9	22	90	4	68	67	0	0	32	0.91
1923258--1923316	19	3.1	19	78	7	66	40	0	0	59	0.97
1923280--1923312	16	2.1	16	88	11	50	30	0	0	69	0.88
1923374--1923417	19	2.6	16	80	19	61	54	6	6	31	1.53
1923379--1923421	19	2.3	19	100	0	86	60	4	4	30	1.37
1923503--1923546	24	2.0	21	86	13	61	65	0	0	34	0.93
1923944--1923980	12	3.2	12	81	18	51	59	0	0	40	0.97
1923943--1924002	10	5.9	11	72	21	51	60	0	0	40	0.97
1931845--1931907	32	2.0	32	100	0	126	44	3	3	49	1.34
1932456--1932480	3	8.3	3	100	0	50	68	0	0	32	0.90
1932838--1932886	23	2.1	24	88	3	73	53	0	4	42	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1934321--1934369	21	2.3	21	86	6	64	57	2	0	40	1.10
1934290--1934397	18	5.6	19	72	15	80	57	1	0	40	1.09
1948377--1948423	17	2.5	19	83	16	62	55	0	0	44	0.99
1949290--1949401	24	4.5	24	70	18	70	58	0	0	40	1.04
1952420--1952457	2	19.0	2	94	0	67	47	0	2	50	1.15
1957898--1957982	22	3.6	22	75	20	91	54	2	0	43	1.13
1958657--1958760	39	2.7	38	76	16	99	52	0	0	46	1.07
1958806--1958853	21	2.3	21	81	0	69	60	0	0	39	0.97
1959567--1959602	18	1.9	18	88	5	54	69	0	2	27	1.02
1959602--1959661	28	2.1	28	90	6	95	50	1	5	43	1.34
1959602--1959672	28	2.6	28	86	6	83	50	4	4	40	1.41
1967339--1967364	6	4.3	6	100	0	52	46	38	15	0	1.46
1968886--1968916	2	15.5	2	100	0	62	51	0	48	0	1.00
1970358--1970407	23	2.2	23	96	3	93	38	18	12	32	1.87
1971085--1971120	18	1.9	19	88	5	56	36	5	2	55	1.38
1974103--1974151	15	3.0	16	80	19	57	30	0	4	65	1.11
1974174--1974214	21	1.9	22	85	5	57	48	2	2	46	1.28
1974348--1974376	15	1.9	15	100	0	58	13	0	0	86	0.58
1976692--1976723	3	10.7	3	100	0	64	31	0	0	68	0.90
1980441--1980497	12	5.1	11	75	16	55	52	0	0	47	1.00
1980580--1980628	24	2.0	24	92	7	82	44	0	0	55	0.99
1980686--1980760	20	3.7	20	73	18	66	45	0	0	54	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1980714--1980755	22	2.0	22	85	4	59	50	0	0	50	1.00
1980693--1980762	19	3.5	20	70	16	54	47	0	0	52	1.00
1981539--1981587	25	1.9	26	87	4	73	44	0	0	55	0.99
1986302--1986377	28	2.7	29	80	10	86	52	0	1	46	1.08
1990503--1990676	89	2.0	88	97	1	330	22	12	18	46	1.82
1994529--1994600	18	3.9	18	87	3	90	18	33	26	22	1.96
2005988--2006025	12	3.2	12	92	0	58	60	0	7	31	1.25
2005992--2006025	3	11.3	3	87	0	50	61	0	5	32	1.20
2008320--2008362	22	1.9	23	81	13	54	58	0	0	41	0.98
2009039--2009091	22	2.5	22	85	14	76	60	3	0	35	1.15

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