genome.fa.s364.2.7.7.80.10.50.1000.9.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: Scaffold364
Parameters: 2 7 7 80 10 50 1000
Length:  2089110

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

This is table  9  of  10  ( 1160 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)
1748845--1748897	17	3.2	17	72	20	58	49	1	0	49	1.12
1748826--1748923	32	3.1	32	88	2	108	46	2	0	51	1.12
1751735--1752035	67	4.5	68	80	7	283	25	18	17	37	1.93
1751738--1752078	134	2.5	134	79	3	337	25	19	16	37	1.93
1751921--1752096	67	2.6	67	82	7	189	26	21	16	35	1.95
1752505--1752567	18	3.5	19	81	16	73	55	4	0	39	1.21
1752639--1752669	16	1.9	16	93	0	53	12	32	25	29	1.93
1753411--1753435	2	12.5	2	100	0	50	48	0	0	52	1.00
1753676--1753731	14	3.9	14	73	13	51	35	25	14	25	1.93
1753729--1753785	15	3.9	14	88	6	69	35	7	19	38	1.79
1753737--1753785	15	3.4	14	88	8	71	36	8	18	36	1.81
1754820--1754857	14	2.7	14	88	8	51	36	0	0	63	0.95
1754895--1754932	15	2.5	15	84	12	51	50	0	0	50	1.00
1754922--1754966	11	4.3	11	81	13	51	55	0	0	44	0.99
1754914--1754971	22	2.6	22	79	17	75	55	0	0	44	0.99
1754905--1754976	27	2.7	26	82	4	72	55	0	0	44	0.99
1756896--1756951	28	2.0	28	86	6	78	35	0	0	64	0.94
1756892--1756935	22	2.0	22	91	4	72	40	0	0	59	0.98
1758762--1758841	42	1.9	42	89	5	126	46	7	6	40	1.57
1758762--1758852	42	2.2	42	86	4	121	52	6	5	35	1.51
1767770--1767795	13	2.0	13	100	0	52	46	7	0	46	1.31
1770774--1771242	159	2.9	159	93	0	794	33	10	30	25	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1773029--1773259	120	1.9	120	91	0	381	29	13	21	35	1.92
1777805--1777872	21	3.2	21	74	13	68	36	4	7	51	1.50
1777821--1777882	21	3.0	20	76	6	61	35	4	11	48	1.60
1777896--1777978	21	3.9	22	77	17	77	39	0	4	55	1.21
1781724--1781763	20	2.0	20	85	9	55	57	0	0	42	0.98
1781724--1781773	26	2.0	26	84	4	66	62	0	0	38	0.96
1789850--1789880	16	1.9	16	93	0	53	41	12	6	38	1.69
1789972--1790003	10	3.4	10	83	16	50	28	0	0	71	0.86
1790067--1790117	23	2.3	23	83	12	63	31	3	0	64	1.11
1790067--1790117	22	2.3	24	83	12	65	31	3	0	64	1.11
1792303--1792378	38	2.0	37	92	2	125	19	22	11	46	1.82
1797270--1797330	27	2.2	28	88	2	88	39	0	4	55	1.21
1797288--1797330	18	2.3	18	81	14	52	39	0	2	58	1.11
1799322--1799370	19	2.9	17	81	18	59	59	0	4	36	1.17
1799521--1799554	17	2.0	17	88	0	50	47	0	0	52	1.00
1800024--1800071	25	1.9	25	83	8	62	60	12	0	27	1.32
1809073--1809109	13	2.8	13	87	4	56	24	0	0	75	0.80
1810834--1810858	7	3.6	7	100	0	50	88	0	0	12	0.53
1811319--1811393	9	8.3	9	70	16	57	64	0	0	36	0.94
1811318--1811378	15	4.1	15	74	17	56	67	0	0	32	0.91
1811317--1811394	26	2.9	26	77	12	77	65	0	0	34	0.93
1811318--1811451	35	3.8	35	72	20	88	58	1	0	40	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1811774--1811814	18	2.4	17	84	8	55	53	0	0	46	1.00
1811780--1811843	33	1.9	33	81	6	76	54	0	0	45	0.99
1813851--1813901	24	2.1	25	89	7	79	62	0	0	37	0.95
1814693--1814750	30	1.9	30	89	6	91	55	5	0	39	1.22
1822162--1822202	2	20.5	2	100	0	82	48	0	0	51	1.00
1824862--1824895	3	11.3	3	100	0	68	67	0	0	32	0.91
1825174--1825269	42	2.2	42	80	12	106	51	1	1	46	1.14
1825176--1825276	37	2.8	37	82	8	109	51	1	0	45	1.19
1825220--1825269	15	3.5	15	83	8	68	52	2	0	46	1.12
1825174--1825269	6	15.7	6	70	23	51	51	1	1	46	1.14
1825233--1825278	22	2.1	21	84	4	56	47	4	0	47	1.21
1825295--1825350	23	2.2	26	84	12	73	50	8	7	33	1.61
1825702--1825744	20	2.2	20	83	8	52	65	2	2	30	1.18
1826212--1826252	3	13.7	3	100	0	82	68	0	0	31	0.90
1828358--1828395	19	1.9	19	89	5	58	23	2	10	63	1.39
1830167--1830205	16	2.5	15	83	4	51	69	0	0	30	0.89
1830144--1830206	21	3.0	21	73	15	58	69	0	0	30	0.88
1830329--1830384	26	2.2	26	84	9	71	35	0	1	62	1.06
1832620--1832672	2	27.0	2	96	3	99	49	0	0	50	1.00
1833656--1834386	363	2.0	363	100	0	1462	30	18	16	34	1.93
1837492--1837568	32	2.3	33	78	13	86	42	0	3	53	1.19
1837501--1837562	32	2.0	32	87	9	92	41	0	3	54	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1838026--1838064	3	12.7	3	94	5	69	35	0	0	64	0.94
1838738--1838769	2	16.0	2	100	0	64	50	0	0	50	1.00
1839562--1839587	11	2.4	11	100	0	52	53	0	0	46	1.00
1840538--1840565	2	14.0	2	100	0	56	50	0	0	50	1.00
1843662--1843709	21	2.3	23	75	20	59	52	0	0	47	1.00
1844112--1844192	26	2.9	29	72	22	75	59	6	1	33	1.30
1844528--1844590	26	2.3	26	78	8	63	47	4	0	47	1.23
1846610--1846634	3	8.3	3	100	0	50	32	0	0	68	0.90
1851721--1851760	3	13.3	3	100	0	80	67	0	0	32	0.91
1853593--1853619	2	13.5	2	100	0	54	51	0	0	48	1.00
1855446--1855477	2	16.0	2	100	0	64	50	0	0	50	1.00
1860836--1860918	28	2.8	29	78	8	80	56	0	0	43	0.99
1864691--1864719	15	2.0	15	93	6	51	27	0	0	72	0.85
1864801--1864842	13	3.4	13	78	21	54	35	0	0	64	0.94
1864795--1864842	11	4.1	12	82	12	55	37	0	0	62	0.95
1866310--1866339	13	2.4	13	94	5	53	50	20	23	6	1.71
1868400--1868433	3	11.3	3	100	0	68	67	0	0	32	0.91
1871393--1871434	2	21.0	2	100	0	84	50	0	0	50	1.00
1874602--1874641	20	2.0	20	100	0	80	30	25	5	40	1.77
1878742--1878784	13	3.5	13	84	6	54	37	0	4	58	1.19
1882245--1882319	25	3.0	25	73	13	73	48	0	1	50	1.09
1883148--1883191	23	1.9	23	86	9	63	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)
1885468--1885507	10	3.9	10	83	3	53	42	2	0	55	1.13
1885472--1885514	21	2.1	20	91	4	68	34	2	0	62	1.08
1886928--1886976	24	2.1	22	85	7	62	57	4	12	26	1.53
1889753--1889790	2	19.0	2	100	0	76	50	0	0	50	1.00
1892673--1892716	3	14.7	3	95	0	79	63	0	2	34	1.07
1892975--1893047	30	2.4	29	84	9	92	65	0	4	30	1.11
1894208--1894322	6	18.0	6	72	15	63	43	0	0	54	1.12
1894208--1894322	14	9.0	12	68	16	63	43	0	0	54	1.12
1894210--1894311	2	55.5	2	68	19	53	44	0	0	53	1.13
1894210--1894311	20	5.2	20	70	22	74	44	0	0	53	1.13
1894227--1894324	32	3.0	34	73	13	89	46	1	1	51	1.14
1894780--1894820	2	20.5	2	90	9	66	2	46	0	51	1.14
1895167--1895193	11	2.5	11	100	0	54	7	7	0	85	0.75
1895248--1895282	3	11.7	3	100	0	70	31	0	0	68	0.90
1896602--1896628	2	13.5	2	100	0	54	48	0	0	51	1.00
1898229--1898275	2	24.0	2	95	4	87	51	0	0	48	1.00
1902091--1902126	19	1.9	18	88	5	54	33	5	2	58	1.36
1908931--1908976	20	2.3	20	84	0	56	13	47	4	34	1.62
1914939--1914965	2	13.5	2	100	0	54	51	0	48	0	1.00
1925674--1925718	22	2.0	23	86	4	65	48	2	0	48	1.13
1929588--1929695	54	2.0	54	90	0	171	17	25	25	31	1.97
1931789--1931824	2	18.0	2	100	0	72	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)
1931843--1931880	17	2.1	19	85	9	53	57	0	0	42	0.98
1931958--1931998	20	2.2	19	86	8	57	34	2	0	63	1.08
1932078--1932103	2	13.0	2	100	0	52	50	0	0	50	1.00
1933216--1933242	2	13.5	2	100	0	54	48	0	0	51	1.00
1937090--1937115	5	5.2	5	100	0	52	80	0	19	0	0.71
1938614--1938651	3	12.7	3	100	0	76	31	0	0	68	0.90
1939229--1939281	27	2.0	27	85	3	72	39	3	7	49	1.49
1940594--1940657	20	3.3	19	78	8	58	45	1	0	53	1.10
1940731--1940783	20	2.7	20	82	5	63	62	0	0	37	0.96
1941706--1941751	20	2.3	19	85	7	56	39	0	0	60	0.97

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