genome.fa.s140.2.7.7.80.10.50.1000.12.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: Scaffold140
Parameters: 2 7 7 80 10 50 1000
Length:  3130556

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

This is table  12  of  20  ( 2326 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)
1797037--1797071	18	1.9	18	88	0	52	40	0	0	60	0.97
1798041--1798070	15	2.1	14	93	6	51	30	0	0	70	0.88
1798330--1798385	29	1.9	29	88	0	85	33	3	1	60	1.24
1798328--1798391	29	2.2	29	80	0	83	35	3	1	59	1.23
1799278--1799330	21	2.3	22	84	15	72	52	0	0	47	1.00
1799803--1799861	17	3.6	17	75	25	72	44	0	0	55	0.99
1799811--1799877	32	2.1	33	94	2	118	41	0	1	56	1.08
1799997--1800057	28	2.1	30	84	6	81	39	1	0	59	1.08
1799997--1800077	29	2.8	30	85	5	96	38	1	0	60	1.05
1800840--1800884	21	2.2	20	80	11	54	60	0	0	40	0.97
1801333--1801367	18	1.9	17	88	11	52	51	0	0	48	1.00
1801331--1801381	19	2.7	19	77	17	61	43	0	0	56	0.99
1801316--1801428	11	10.5	11	67	20	60	39	0	0	59	1.04
1802823--1802857	13	2.5	14	90	9	54	45	0	0	54	0.99
1804855--1804897	18	2.5	17	76	3	50	60	2	2	34	1.22
1805310--1805368	25	2.4	25	79	0	73	62	0	0	37	0.95
1807352--1807412	14	4.4	14	76	15	63	36	0	0	63	0.94
1807353--1807415	15	4.4	14	74	8	56	34	0	0	65	0.93
1807368--1807439	30	2.5	27	78	14	74	33	2	2	61	1.25
1807528--1807595	16	4.2	15	74	20	57	39	0	0	60	0.97
1807528--1807594	32	2.0	33	88	11	102	38	0	0	61	0.96
1807530--1807644	19	6.4	19	71	20	63	40	1	0	57	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1816493--1816561	21	3.4	21	73	15	65	65	2	1	30	1.16
1817166--1817212	3	15.7	3	100	0	94	68	0	0	31	0.90
1819633--1819672	7	5.7	7	84	0	53	52	0	0	47	1.00
1819631--1819724	14	6.8	14	68	16	70	46	0	1	52	1.07
1819656--1819715	23	2.8	20	75	20	68	38	0	1	60	1.07
1821119--1821151	15	2.2	15	94	0	57	60	0	0	39	0.97
1821118--1821155	16	2.5	15	86	4	58	63	0	0	36	0.95
1825371--1825423	2	26.5	2	96	0	97	47	0	1	50	1.12
1830514--1830561	19	2.5	18	80	12	51	35	22	4	37	1.74
1831177--1831277	33	3.1	33	98	0	193	46	3	8	40	1.54
1831631--1831656	2	13.0	2	100	0	52	50	0	0	50	1.00
1832859--1832919	12	5.1	12	90	4	70	54	1	1	42	1.20
1832860--1832910	2	25.5	2	91	0	84	52	1	0	45	1.12
1833179--1833214	3	12.0	3	100	0	72	66	0	0	33	0.92
1834676--1834719	2	22.0	2	100	0	88	50	0	0	50	1.00
1839360--1839411	19	2.7	19	82	11	61	36	1	0	61	1.07
1843574--1843609	2	18.0	2	88	0	54	47	0	5	47	1.25
1844250--1844319	20	3.6	19	74	18	63	41	0	0	58	0.98
1844250--1844321	21	3.7	20	75	12	69	41	0	0	58	0.98
1845535--1845559	2	12.5	2	100	0	50	52	0	0	48	1.00
1845615--1845784	85	2.0	85	95	0	304	28	10	19	41	1.83
1847446--1847480	3	11.7	3	100	0	70	31	0	0	68	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1848459--1848523	25	2.5	26	80	14	80	46	1	0	52	1.10
1850517--1850614	11	8.8	11	70	24	64	34	0	1	64	1.01
1850555--1850610	27	2.0	29	83	10	73	33	0	0	66	0.92
1850545--1850625	14	6.0	14	70	15	64	38	0	0	61	0.96
1852261--1852287	13	2.1	13	100	0	54	37	0	29	33	1.58
1853282--1853353	29	2.6	27	76	10	74	50	0	0	50	1.00
1853720--1853750	2	15.5	2	93	0	53	0	45	0	54	0.99
1864076--1864139	24	2.6	25	77	5	76	65	0	1	32	1.02
1865774--1865825	21	2.5	20	76	17	52	59	3	0	36	1.16
1867011--1867127	32	3.7	32	82	2	146	41	0	11	47	1.41
1868495--1868528	2	17.0	2	100	0	68	50	0	0	50	1.00
1869150--1869186	2	18.5	2	100	0	74	48	0	0	51	1.00
1869929--1869981	18	2.9	18	81	10	56	83	0	16	0	0.66
1869929--1869981	5	10.8	5	81	18	51	83	0	16	0	0.66
1869929--1869981	16	3.2	16	77	12	54	83	0	16	0	0.66
1875884--1875917	16	2.1	16	88	5	50	55	5	0	38	1.24
1879233--1879301	6	11.3	6	76	17	63	66	0	0	33	0.92
1879230--1879300	11	6.5	11	77	18	76	64	0	0	35	0.94
1880821--1880852	16	1.9	17	93	6	57	59	0	0	40	0.97
1881181--1881234	16	3.5	16	73	14	51	66	1	0	31	1.02
1882294--1882334	2	20.5	2	100	0	82	51	0	0	48	1.00
1883550--1883589	2	20.0	2	100	0	80	0	50	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1886779--1886827	16	3.1	16	74	11	55	46	0	0	53	1.00
1892618--1892646	15	1.9	15	100	0	58	68	24	6	0	1.13
1893133--1893175	18	2.3	19	88	4	61	60	0	0	39	0.97
1893258--1893310	13	3.6	14	80	16	54	58	0	1	39	1.09
1893305--1893353	16	2.9	17	72	9	55	53	2	0	44	1.12
1894349--1894387	2	19.5	2	100	0	78	51	0	0	48	1.00
1895294--1895330	11	3.3	11	85	7	56	67	0	0	32	0.91
1895284--1895337	23	2.4	23	76	14	67	64	0	1	33	1.04
1895294--1895333	12	3.3	12	86	6	55	67	0	0	32	0.91
1898945--1898987	16	2.7	16	82	7	52	69	0	0	30	0.88
1899929--1899953	6	4.2	6	100	0	50	16	0	0	84	0.63
1899907--1899970	33	1.9	34	87	6	96	32	0	1	65	1.02
1899946--1900014	16	4.2	15	74	18	66	40	0	4	55	1.20
1899946--1900034	17	5.6	16	70	19	71	44	0	3	51	1.18
1899995--1900065	32	2.4	30	80	13	83	53	0	0	46	1.00
1900207--1900274	19	3.6	19	79	16	79	41	0	0	58	0.98
1900260--1900316	16	3.6	15	73	17	53	50	0	0	49	1.00
1900265--1900336	32	2.4	32	88	9	107	48	0	0	51	1.00
1901958--1902278	16	20.3	15	68	21	89	46	1	0	51	1.15
1901978--1902073	31	3.1	31	83	5	115	41	0	0	58	0.98
1902082--1902184	36	2.8	36	73	12	86	50	1	0	47	1.12
1902048--1902166	22	5.4	22	68	19	77	52	2	0	44	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1902126--1902301	37	4.9	37	69	20	126	48	0	1	48	1.15
1902120--1902284	22	7.6	22	69	21	77	47	0	1	49	1.16
1902204--1902266	15	4.3	15	74	13	53	46	0	1	52	1.10
1902268--1902305	16	2.3	17	82	17	53	57	0	0	42	0.98
1902879--1902906	14	2.0	14	100	0	56	0	14	0	85	0.59
1904341--1904404	16	4.3	15	76	11	51	62	1	1	34	1.14
1909878--1909902	2	12.5	2	100	0	50	52	0	0	48	1.00
1910012--1910073	26	2.2	29	78	18	78	53	0	0	46	1.00
1910491--1910520	15	2.0	15	93	0	51	36	0	0	63	0.95
1914394--1914461	21	3.0	21	73	19	66	39	0	0	60	0.97
1914393--1914454	29	2.2	27	86	11	81	33	0	0	66	0.92
1914393--1914456	28	2.3	27	82	12	76	35	0	0	64	0.94
1914387--1914472	23	3.7	23	69	12	68	43	0	0	56	0.99
1914447--1914489	16	2.5	17	81	7	52	48	0	0	51	1.00
1914425--1914558	39	3.5	38	72	22	118	47	0	1	50	1.15
1914438--1914481	23	1.9	23	81	9	54	52	0	0	47	1.00
1914447--1914496	18	2.9	16	80	11	55	50	0	2	48	1.12
1914529--1914582	21	2.6	20	82	5	63	51	1	1	44	1.22
1915070--1915122	10	5.1	10	77	6	52	47	0	1	50	1.12
1915628--1915666	3	13.0	3	94	0	69	64	0	2	33	1.08
1915867--1915917	11	4.5	11	80	11	59	43	0	0	56	0.99
1915861--1915912	22	2.5	21	84	9	79	44	0	0	55	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2001288--2001316	2	14.5	2	100	0	58	0	48	0	51	1.00
2002202--2002233	2	16.0	2	100	0	64	50	0	0	50	1.00
2003831--2003866	3	13.0	3	88	11	51	69	0	0	30	0.89
2003830--2003865	18	1.9	19	94	5	65	72	0	0	27	0.85
2006328--2006360	2	16.5	2	100	0	66	51	0	0	48	1.00
2007197--2007238	15	2.7	15	88	7	57	52	0	2	45	1.13
2007448--2007481	17	1.9	18	94	5	61	38	0	8	52	1.33
2007449--2007486	17	2.2	17	86	9	51	39	2	10	47	1.52
2007535--2007599	26	2.4	28	70	19	66	63	0	0	36	0.95
2011795--2011829	18	1.9	18	94	0	61	20	0	5	74	1.02

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