genome.fa.s60.2.7.7.80.10.50.1000.12.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: Scaffold60
Parameters: 2 7 7 80 10 50 1000
Length:  3815296

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

This is table  12  of  21  ( 2419 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)
1757945--1757986	16	2.6	16	81	7	50	59	2	0	38	1.10
1761161--1761332	87	2.0	87	95	0	308	25	13	20	40	1.89
1762990--1763132	69	2.1	70	93	1	243	26	12	17	43	1.85
1764846--1764915	23	3.0	23	72	12	63	55	2	0	41	1.14
1768603--1768647	2	22.5	2	90	0	72	51	2	0	46	1.13
1769030--1769063	3	11.3	3	100	0	68	32	0	0	67	0.91
1769174--1769243	34	2.1	34	86	0	95	32	5	2	58	1.36
1774074--1774136	2	31.5	2	90	0	81	49	7	0	42	1.32
1775939--1775975	2	18.5	2	94	0	65	48	0	2	48	1.15
1778454--1778492	15	2.5	16	87	8	62	53	0	0	46	1.00
1780548--1780587	19	2.1	19	85	4	53	52	0	0	47	1.00
1788151--1788192	18	2.3	19	79	4	50	50	2	2	45	1.27
1788560--1788603	18	2.4	18	88	3	61	45	0	0	54	0.99
1789100--1789124	4	6.2	4	100	0	50	24	0	0	76	0.80
1789359--1789388	15	1.9	16	93	6	53	50	0	0	50	1.00
1793522--1793606	24	3.6	23	74	15	59	47	0	1	51	1.08
1795619--1795678	30	2.0	30	83	6	77	40	1	0	58	1.08
1795842--1795885	25	1.9	22	82	17	54	50	0	0	50	1.00
1799894--1799949	2	28.0	2	100	0	112	50	0	0	50	1.00
1802387--1802449	32	2.0	32	84	6	83	65	3	0	31	1.09
1802397--1802550	16	9.6	16	65	18	54	55	2	0	40	1.18
1802446--1802539	47	2.0	45	80	15	102	53	1	1	44	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1802786--1802820	2	18.0	2	88	5	54	45	0	0	54	0.99
1803387--1803442	2	27.5	2	92	3	85	50	5	0	44	1.25
1803387--1803449	23	2.8	23	87	2	74	47	11	1	39	1.49
1803402--1803450	25	2.0	25	87	0	71	46	14	2	36	1.56
1804893--1804936	23	1.9	23	90	9	72	47	6	0	45	1.29
1804893--1804931	11	3.5	11	83	16	53	48	7	0	43	1.31
1805536--1805589	23	2.2	24	78	15	58	62	1	0	35	1.06
1805610--1805667	15	3.6	16	81	6	73	50	0	0	50	1.00
1805610--1805663	16	3.4	15	80	10	63	51	0	0	48	1.00
1805924--1805982	19	2.6	25	68	31	60	47	0	0	52	1.00
1806050--1806075	7	3.7	7	100	0	52	42	0	0	57	0.98
1806459--1806491	15	2.2	15	100	0	66	51	0	18	30	1.46
1806856--1806892	2	18.5	2	94	0	65	48	0	2	48	1.15
1807670--1807730	25	2.4	25	75	5	61	62	1	3	32	1.21
1807983--1808013	11	2.8	11	95	0	53	45	0	0	54	0.99
1825369--1825471	52	2.0	52	86	3	145	33	12	23	31	1.92
1826979--1827056	32	2.4	33	89	4	113	55	1	0	43	1.08
1826993--1827063	18	4.1	18	71	25	55	53	1	0	45	1.09
1830510--1830538	3	9.7	3	100	0	58	31	0	0	68	0.89
1832001--1832054	23	2.3	23	77	3	54	59	1	1	37	1.19
1833092--1833125	17	2.0	17	88	0	50	47	0	0	52	1.00
1834037--1834083	15	3.1	15	87	0	67	17	44	14	23	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1836268--1836306	2	19.5	2	89	0	60	0	2	46	51	1.14
1837107--1837141	2	17.5	2	100	0	70	51	0	0	48	1.00
1837836--1837868	17	1.9	17	93	0	57	57	0	9	33	1.30
1838908--1838986	23	3.5	22	71	13	63	37	0	0	62	0.96
1838907--1838968	19	3.1	19	75	15	63	35	0	0	64	0.94
1838917--1838978	18	3.5	17	76	10	63	37	0	0	62	0.95
1838952--1839011	20	3.2	20	80	17	58	41	3	0	55	1.16
1841904--1841955	24	2.1	25	86	10	72	51	0	1	46	1.12
1843154--1843180	3	9.0	3	100	0	54	0	33	33	33	1.58
1843563--1843596	2	17.0	2	93	0	59	47	0	2	50	1.16
1843566--1843603	12	3.2	12	92	0	58	42	0	7	50	1.31
1844837--1844864	2	14.0	2	100	0	56	50	0	0	50	1.00
1849314--1849338	2	12.5	2	100	0	50	48	0	0	52	1.00
1849990--1850051	9	6.9	9	76	12	65	41	0	0	58	0.98
1849990--1850051	18	3.4	18	84	10	83	41	0	0	58	0.98
1850007--1850077	17	3.9	18	83	10	74	46	1	0	52	1.09
1850006--1850083	36	2.1	36	81	11	88	44	1	1	52	1.17
1850666--1850707	22	1.9	22	85	0	57	40	0	0	59	0.97
1850655--1850712	29	2.0	28	87	9	82	44	0	0	55	0.99
1850779--1850818	17	2.5	15	84	11	53	30	0	0	70	0.88
1850846--1850906	22	2.7	23	80	12	74	50	0	0	49	1.00
1850844--1850906	16	3.9	16	77	10	74	49	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1851505--1851619	52	2.1	53	86	13	155	53	3	1	40	1.28
1854152--1854179	2	14.0	2	100	0	56	0	50	0	50	1.00
1859067--1859094	2	14.0	2	100	0	56	50	0	0	50	1.00
1860058--1860133	33	2.3	31	86	8	98	51	0	5	43	1.24
1860835--1860897	26	2.5	26	81	2	65	52	1	11	34	1.47
1865610--1865644	5	7.0	5	86	0	52	60	14	0	25	1.35
1865610--1865644	10	3.5	10	96	0	61	60	14	0	25	1.35
1868653--1868699	23	2.0	23	88	8	69	53	2	0	44	1.12
1872504--1872531	2	14.0	2	100	0	56	50	0	0	50	1.00
1876875--1876908	2	17.0	2	100	0	68	50	0	0	50	1.00
1877837--1877905	22	3.3	22	75	15	67	49	0	0	50	1.00
1878389--1878414	13	2.0	13	100	0	52	69	0	0	30	0.89
1878744--1878780	2	19.0	2	94	5	67	48	0	0	51	1.00
1878986--1879020	3	11.7	3	100	0	70	34	0	0	65	0.93
1880617--1880662	22	2.1	22	95	0	83	45	8	8	36	1.66
1883211--1883253	21	2.1	20	86	4	59	58	0	0	41	0.98
1883230--1883264	16	2.2	16	94	0	61	65	0	0	34	0.93
1883235--1883273	16	2.3	17	91	8	62	64	0	0	35	0.94
1884212--1884250	18	2.2	18	85	0	51	66	0	0	33	0.92
1884376--1884448	27	2.7	26	87	6	101	27	4	15	53	1.60
1884408--1884477	24	2.8	24	84	4	77	27	4	21	47	1.69
1888909--1888981	27	2.7	27	85	2	94	27	10	12	49	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1888917--1888981	26	2.4	27	87	2	87	30	9	10	49	1.69
1888944--1889009	24	2.6	25	85	4	80	25	7	19	46	1.76
1889686--1889736	24	2.2	23	86	10	68	35	5	1	56	1.35
1889726--1889770	14	3.3	14	78	6	56	55	0	0	44	0.99
1893957--1894025	20	3.1	23	80	16	83	55	0	0	44	0.99
1893975--1894044	36	1.9	36	83	13	90	52	0	0	47	1.00
1894394--1894440	21	2.2	22	81	11	53	23	4	2	70	1.16
1894431--1894457	13	2.1	13	100	0	54	40	0	0	59	0.98
1894455--1894498	14	3.2	14	80	6	54	56	0	0	43	0.99
1894476--1894508	17	2.1	16	88	11	50	45	0	0	54	0.99
1894561--1894590	2	15.0	2	100	0	60	50	0	0	50	1.00
1896433--1896651	120	1.8	119	89	1	341	42	10	10	36	1.73
1896846--1896891	24	2.0	24	83	8	60	41	0	0	58	0.98
1899036--1899063	2	14.0	2	100	0	56	50	0	50	0	1.00
1902830--1902861	2	16.0	2	100	0	64	50	0	50	0	1.00
1905721--1905790	36	2.0	35	86	8	97	34	1	2	61	1.20
1906394--1906458	22	3.0	21	77	4	67	36	9	3	50	1.50
1908517--1908567	21	2.4	22	90	9	79	54	0	0	45	0.99
1908758--1908801	23	1.9	23	85	0	61	50	0	2	47	1.13
1909762--1909805	2	22.5	2	95	4	81	50	0	0	50	1.00
1910825--1910859	18	1.9	18	88	11	54	68	0	0	31	0.90
1911638--1911739	3	33.7	3	74	13	66	57	1	6	33	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1911628--1911744	41	2.9	40	86	13	177	57	2	6	33	1.39
1911638--1911739	44	2.3	44	98	0	195	57	1	6	33	1.36
1912135--1912205	30	2.3	30	87	4	97	32	4	1	61	1.23
1912150--1912228	30	2.9	28	72	20	67	34	3	2	59	1.29
1912527--1912600	28	2.5	29	82	10	96	56	0	1	41	1.07
1915760--1915819	17	3.5	17	79	6	59	41	5	3	50	1.41
1919063--1919109	17	2.8	17	74	3	51	46	4	4	44	1.42
1919113--1919148	19	1.9	19	88	5	56	33	25	5	36	1.79
1927895--1927926	9	3.4	10	87	12	50	62	0	0	37	0.95
1931050--1931079	2	15.5	2	93	6	53	50	0	0	50	1.00

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