genome.fa.s57.2.7.7.80.10.50.1000.14.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: Scaffold57
Parameters: 2 7 7 80 10 50 1000
Length:  4071704

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   26   27   

This is table  14  of  27  ( 3137 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)
1822436--1822480	20	2.2	21	88	4	65	46	0	0	53	1.00
1822492--1822543	16	3.3	16	79	15	56	34	1	0	63	1.06
1822492--1822560	19	3.6	19	78	16	54	36	2	0	60	1.11
1822511--1822559	19	2.4	21	80	10	57	34	2	0	63	1.06
1824917--1824964	24	2.0	25	87	4	71	35	0	2	62	1.07
1825062--1825118	22	2.6	21	81	13	71	59	0	0	40	0.97
1825406--1825459	27	2.0	27	82	13	67	37	0	0	62	0.95
1826846--1826894	22	2.2	22	82	7	55	38	2	6	53	1.38
1833012--1833084	10	7.4	10	69	14	53	36	1	1	60	1.14
1833442--1833574	11	12.5	11	69	19	52	56	0	0	42	1.10
1833441--1833490	12	4.0	12	80	15	57	64	2	0	34	1.05
1833472--1833547	33	2.3	32	84	8	91	55	1	0	43	1.08
1833504--1833562	18	3.2	19	72	27	56	52	0	0	47	1.00
1836557--1836600	23	2.0	22	86	4	61	75	0	0	25	0.81
1836553--1836600	11	4.3	11	81	5	60	75	0	0	25	0.81
1836559--1836632	29	2.5	30	78	8	73	68	2	1	27	1.10
1836565--1836633	19	3.6	18	71	17	59	68	2	1	27	1.13
1836568--1836698	11	13.1	10	66	23	55	64	3	0	32	1.14
1837208--1837253	23	2.1	21	84	11	58	56	2	0	41	1.11
1838620--1838651	17	2.0	17	88	11	50	56	0	0	43	0.99
1839039--1839099	29	2.1	28	80	11	70	42	0	0	57	0.98
1842221--1842274	12	4.6	12	81	11	58	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)
1842215--1842285	21	3.3	22	73	18	69	57	0	0	42	0.98
1842262--1842350	32	2.8	33	74	17	96	51	0	0	48	1.00
1842222--1842352	28	4.5	28	68	23	83	54	0	0	45	0.99
1842285--1842352	29	2.2	32	82	12	90	50	0	0	50	1.00
1844445--1844479	2	17.5	2	100	0	70	51	0	0	48	1.00
1844577--1844631	12	4.2	13	80	15	60	38	0	0	61	0.96
1844585--1844638	27	2.0	28	88	3	83	40	0	0	59	0.98
1844582--1844638	28	2.0	30	83	13	75	42	0	0	57	0.98
1844650--1844709	30	2.0	30	83	0	75	46	1	0	51	1.10
1844728--1844790	29	2.1	31	82	5	76	47	7	0	44	1.32
1844921--1844960	2	20.0	2	100	0	80	50	0	50	0	1.00
1849138--1849166	2	14.5	2	100	0	58	51	0	0	48	1.00
1851555--1851642	30	2.9	29	75	11	70	50	0	5	44	1.26
1851786--1851828	19	2.4	17	81	14	50	48	0	0	51	1.00
1851785--1851829	18	2.4	19	81	11	56	48	0	0	51	1.00
1856363--1856445	28	3.0	27	89	6	98	57	7	6	28	1.49
1856386--1856445	28	2.1	28	100	0	120	56	8	6	28	1.54
1856777--1856830	21	2.5	21	82	14	58	50	1	5	42	1.36
1857067--1857115	22	2.2	22	77	0	53	34	4	8	53	1.50
1857570--1857601	11	2.8	12	90	9	50	21	0	6	71	1.07
1858470--1858511	20	2.0	21	86	4	59	38	9	0	52	1.34
1858654--1858704	19	2.8	17	83	13	66	68	1	0	29	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1865212--1865249	17	2.2	17	100	0	76	34	10	5	50	1.59
1881735--1881775	17	2.2	20	83	12	52	58	0	12	29	1.34
1881873--1881988	61	1.9	61	89	0	178	48	6	6	39	1.53
1886155--1886197	16	2.8	16	82	3	52	9	16	2	72	1.21
1890100--1890126	2	13.5	2	100	0	54	51	0	0	48	1.00
1890406--1890447	21	2.0	21	86	9	59	73	0	2	23	0.94
1890478--1890510	2	16.5	2	100	0	66	48	0	0	51	1.00
1891275--1891317	19	2.1	22	87	12	65	55	0	2	41	1.12
1891714--1891772	27	2.1	28	87	9	86	44	0	0	55	0.99
1891816--1891862	25	1.9	24	86	4	67	31	0	0	68	0.90
1891801--1891851	20	2.5	20	83	3	75	33	0	0	66	0.92
1892699--1892747	25	2.0	25	87	0	71	55	0	0	44	0.99
1892697--1892783	31	2.6	34	79	12	85	52	0	0	47	1.00
1896407--1896461	29	1.9	28	82	10	67	52	3	1	41	1.29
1896735--1896764	6	5.0	6	95	0	51	20	0	0	80	0.72
1896883--1896907	2	12.5	2	100	0	50	48	0	0	52	1.00
1897157--1897181	13	1.9	13	100	0	50	48	0	4	48	1.20
1898211--1898249	20	2.0	20	85	5	53	46	0	12	41	1.42
1898257--1898281	11	2.3	11	100	0	50	36	0	0	64	0.94
1899113--1899246	12	11.8	12	69	21	58	38	0	0	59	1.08
1899118--1899251	10	13.3	10	68	18	57	38	0	0	60	1.07
1899142--1899212	20	3.6	19	81	5	63	45	0	1	53	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1899165--1899211	20	2.3	20	85	0	67	46	0	2	51	1.13
1899217--1899253	12	3.2	12	92	3	58	27	0	0	72	0.84
1899212--1899255	11	3.9	11	77	16	54	27	0	0	72	0.85
1900240--1900278	21	1.9	20	84	5	51	51	0	0	48	1.00
1900361--1900410	15	3.4	15	78	10	50	62	2	0	36	1.07
1900373--1900410	14	2.6	15	87	4	51	60	0	0	39	0.97
1902831--1904065	309	4.0	309	99	0	2428	40	14	19	25	1.89
1904804--1904839	2	18.5	2	94	5	65	52	0	0	47	1.00
1908187--1908215	3	10.0	3	92	7	51	34	0	0	65	0.93
1908650--1908700	19	2.9	19	77	16	56	52	0	0	47	1.00
1908722--1908761	18	2.1	20	90	9	66	65	7	0	27	1.20
1908990--1909022	17	1.9	17	88	11	50	75	6	6	12	1.16
1914453--1914505	22	2.5	22	74	17	58	37	0	1	60	1.08
1914490--1914548	21	2.8	20	85	10	66	45	0	1	52	1.10
1914461--1914553	11	8.5	11	66	17	50	40	0	2	56	1.11
1914458--1914556	13	7.7	13	66	28	52	40	0	2	57	1.10
1916649--1916675	3	9.0	3	100	0	54	66	0	0	33	0.92
1917018--1917066	25	2.0	25	88	7	75	38	0	0	61	0.96
1917037--1917090	26	2.0	28	82	13	69	38	0	0	61	0.96
1917289--1917315	2	13.5	2	100	0	54	51	0	0	48	1.00
1918089--1918131	23	1.9	22	85	4	59	51	0	2	46	1.13
1923057--1923084	13	2.2	13	100	0	56	32	14	14	39	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1926904--1926966	2	32.0	2	72	15	51	46	1	6	46	1.38
1927078--1927144	22	3.0	22	77	12	66	49	0	0	50	1.00
1927193--1927340	72	2.1	72	96	0	269	31	12	15	39	1.85
1928845--1928989	10	14.5	10	76	15	115	41	0	0	57	1.09
1928859--1929005	24	6.1	24	74	17	119	42	0	0	57	1.04
1928868--1929004	37	3.4	39	75	22	117	42	0	0	56	1.04
1928855--1929002	11	14.6	10	71	24	82	41	0	0	57	1.03
1929534--1929617	32	2.6	31	81	12	98	55	0	0	44	0.99
1930523--1930562	12	3.1	13	89	7	55	35	0	5	60	1.19
1931237--1931295	20	3.2	19	72	22	54	55	0	0	44	0.99
1931236--1931314	27	2.9	27	75	17	72	55	1	0	43	1.07
1931770--1931808	3	13.0	3	100	0	78	66	0	0	33	0.92
1936364--1936417	22	2.5	22	93	3	92	59	9	12	18	1.60
1937330--1937404	20	3.8	20	80	3	80	40	12	13	34	1.81
1937327--1937404	40	2.0	39	87	2	111	39	12	12	34	1.82
1939337--1939366	2	15.0	2	100	0	60	50	0	0	50	1.00
1941801--1941863	17	3.8	17	79	8	58	61	0	0	38	0.96
1941816--1941863	15	2.9	17	78	12	64	60	0	0	39	0.97
1941855--1941901	21	2.3	21	81	3	60	44	6	0	48	1.28
1944315--1944346	2	16.0	2	100	0	64	50	0	0	50	1.00
1947637--1947679	15	2.8	16	80	13	54	44	0	0	55	0.99
1947881--1947915	13	2.7	13	100	0	70	37	0	0	62	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1947881--1947934	26	2.1	26	82	6	65	42	0	0	57	0.98
1951087--1951116	10	3.1	10	90	9	53	90	0	10	0	0.47
1955056--1955093	2	19.0	2	94	0	67	47	0	50	2	1.15
1956313--1956382	6	11.7	6	78	0	50	14	4	20	61	1.49
1956767--1956791	6	4.2	6	100	0	50	32	32	0	36	1.58
1957716--1957758	18	2.3	19	80	12	52	58	0	0	41	0.98
1957718--1957786	32	2.2	32	80	12	81	55	0	0	44	0.99
1957708--1957775	13	4.9	13	73	22	50	52	0	1	45	1.09
1957732--1957798	17	4.0	18	77	16	72	52	0	0	47	1.00
1958575--1958614	13	3.2	13	82	3	55	50	2	0	47	1.14

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   26   27