genome.fa.s400.2.7.7.80.10.50.1000.12.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: Scaffold400
Parameters: 2 7 7 80 10 50 1000
Length:  2847997

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

This is table  12  of  17  ( 1977 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)
1754245--1754401	26	6.1	26	94	1	271	12	26	8	52	1.66
1754535--1754561	6	4.5	6	100	0	54	29	0	14	55	1.40
1755489--1755528	11	3.6	11	86	0	62	40	32	7	20	1.80
1758863--1758939	37	2.1	37	82	0	91	24	10	14	50	1.74
1760302--1760427	63	2.0	63	100	0	252	31	15	15	36	1.90
1761706--1761780	21	3.7	20	75	10	71	46	4	12	37	1.60
1762018--1762066	23	2.1	24	84	3	64	53	2	0	44	1.12
1762195--1762237	15	2.8	15	96	3	77	46	0	4	48	1.22
1762195--1762287	15	5.7	15	71	21	71	43	2	4	50	1.34
1762846--1762934	29	3.2	28	71	14	78	50	0	0	49	1.00
1763830--1763969	46	3.0	46	84	5	176	39	7	2	50	1.44
1765854--1765968	60	1.9	60	81	11	139	56	10	5	27	1.54
1768086--1768130	19	2.5	18	85	7	56	42	0	2	55	1.12
1768151--1768188	19	2.0	19	85	10	51	44	21	0	34	1.52
1769672--1769789	62	1.9	62	85	3	166	33	15	22	28	1.94
1770375--1770431	28	2.0	30	86	6	82	50	1	3	43	1.29
1771333--1771369	18	2.1	18	94	0	65	35	13	10	40	1.80
1772734--1772775	23	1.9	23	90	9	70	50	2	0	47	1.14
1773016--1773077	18	3.5	17	72	10	52	48	6	0	45	1.28
1773176--1773301	61	2.0	62	92	4	211	30	16	21	30	1.95
1774355--1774411	28	2.0	28	100	0	114	33	3	24	38	1.73
1782623--1782653	13	2.4	13	94	0	53	35	12	16	35	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1782603--1782669	33	2.0	32	86	11	91	32	16	13	37	1.88
1782698--1782754	19	2.9	19	89	5	78	35	17	15	31	1.92
1782720--1782784	33	2.0	32	87	3	94	40	15	18	26	1.90
1783793--1783818	13	2.0	13	100	0	52	38	15	15	30	1.88
1783771--1783838	33	2.1	32	91	2	109	32	13	19	35	1.90
1784494--1784536	22	2.0	23	86	9	63	34	25	2	37	1.69
1786396--1786433	13	2.9	13	96	0	67	34	18	15	31	1.92
1786636--1786661	8	3.2	8	100	0	52	61	23	0	15	1.33
1791013--1791038	13	2.0	13	100	0	52	30	15	15	38	1.88
1791099--1791171	20	3.6	20	81	3	101	31	19	13	35	1.91
1791077--1791171	41	2.3	42	94	1	165	30	17	12	38	1.87
1791738--1791947	62	3.4	62	93	2	341	25	31	6	36	1.82
1793749--1793786	13	2.9	13	96	0	67	31	15	18	34	1.92
1795867--1795897	15	2.1	15	93	0	53	12	22	16	48	1.80
1799958--1799983	13	2.0	13	100	0	52	30	15	15	38	1.88
1800044--1800136	20	4.6	20	86	2	141	32	19	13	34	1.91
1802706--1802731	13	2.0	13	100	0	52	38	15	15	30	1.88
1802684--1802751	33	2.1	32	91	2	109	32	13	19	35	1.90
1802783--1802837	20	2.7	21	85	2	76	27	16	14	41	1.87
1803133--1803184	26	2.0	26	96	0	95	46	21	7	25	1.77
1803426--1803508	42	2.0	41	87	4	112	33	31	1	33	1.66
1805353--1805394	13	3.2	13	100	0	84	40	16	14	28	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1806472--1806496	13	1.9	13	100	0	50	32	16	16	36	1.90
1806596--1806621	13	2.0	13	100	0	52	38	15	15	30	1.88
1806578--1806641	33	2.0	32	87	3	92	40	20	12	26	1.88
1812545--1812570	8	3.2	8	100	0	52	15	0	23	61	1.33
1812773--1812797	13	1.9	13	100	0	50	32	16	20	32	1.94
1817683--1817720	13	2.9	13	96	0	67	31	15	18	34	1.92
1817852--1817892	22	2.0	20	86	13	57	31	21	4	41	1.74
1818154--1818195	20	2.0	20	86	4	57	21	45	28	4	1.72
1819527--1819571	22	2.1	22	92	8	76	40	0	28	31	1.57
1820305--1820366	33	1.9	33	90	3	99	38	17	14	29	1.89
1824448--1824489	19	2.2	19	83	8	50	45	7	4	42	1.52
1824876--1824945	37	1.9	36	85	2	95	51	0	1	47	1.09
1824932--1824991	28	2.2	26	82	8	75	55	0	0	45	0.99
1824961--1825010	12	4.3	12	77	5	50	58	4	0	38	1.17
1824944--1825002	24	2.3	27	82	11	70	54	3	0	42	1.17
1826068--1826099	2	16.0	2	100	0	64	50	0	0	50	1.00
1826669--1826711	3	14.3	3	100	0	86	32	0	0	67	0.91
1832478--1832509	15	2.1	15	100	0	64	25	12	15	46	1.81
1833847--1833892	20	2.3	20	85	7	58	30	13	17	39	1.87
1833734--1833947	113	1.9	111	83	4	277	29	13	18	38	1.89
1835986--1836026	21	2.0	21	95	0	73	43	9	12	34	1.75
1840293--1840328	18	1.9	19	94	5	65	33	5	0	61	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1840434--1840474	2	20.5	2	94	0	73	46	0	0	53	1.00
1845956--1846059	34	3.1	34	95	0	181	39	19	13	27	1.89
1846586--1846651	34	1.9	34	81	6	80	25	12	24	37	1.90
1849236--1849601	183	2.0	183	100	0	732	33	13	17	35	1.89
1850581--1850646	33	2.0	33	85	5	89	33	12	16	37	1.86
1853163--1853235	20	3.6	20	77	3	92	36	13	17	31	1.89
1853163--1853257	41	2.3	42	98	1	183	41	12	16	29	1.86
1853296--1853321	13	2.0	13	100	0	52	38	15	15	30	1.88
1859427--1859505	20	3.7	21	75	15	72	26	13	15	44	1.84
1859492--1859530	13	3.0	13	96	0	69	30	17	15	35	1.91
1861968--1862040	20	3.6	20	77	3	92	36	13	17	31	1.89
1861968--1862062	41	2.3	42	98	1	183	41	12	16	29	1.86
1862101--1862126	13	2.0	13	100	0	52	38	15	15	30	1.88
1863842--1863907	33	2.0	33	93	0	114	40	22	7	28	1.81
1868649--1868721	38	1.9	38	86	5	103	41	2	19	36	1.66
1869258--1869309	20	2.7	20	85	14	81	34	25	15	25	1.95
1869258--1869309	19	2.7	18	91	8	77	34	25	15	25	1.95
1869296--1869401	19	5.8	19	80	13	125	29	14	16	40	1.87
1869315--1869342	13	2.2	13	100	0	56	32	14	14	39	1.86
1869296--1869361	32	2.1	32	94	0	114	28	13	13	43	1.82
1869430--1869497	33	2.1	33	86	5	93	33	13	13	39	1.83
1872227--1872266	21	1.9	21	84	0	53	15	5	27	52	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1882047--1882072	13	2.0	13	100	0	52	38	15	15	30	1.88
1884290--1884334	21	2.1	21	84	8	56	53	4	20	22	1.63
1886138--1886168	15	2.1	15	93	0	53	48	16	22	12	1.80
1888184--1888263	20	3.8	20	75	15	79	26	15	15	43	1.85
1888249--1888287	13	3.0	13	92	0	60	30	20	12	35	1.90
1888408--1888454	21	2.3	21	79	20	55	34	19	4	42	1.70
1888410--1888452	20	2.2	19	84	16	52	32	18	4	44	1.71
1890815--1890840	13	2.0	13	100	0	52	38	15	15	30	1.88
1901649--1901682	10	3.3	10	88	8	50	44	0	8	47	1.34
1902086--1902148	27	2.3	27	100	0	126	22	30	22	25	1.99
1904961--1904986	13	2.0	13	100	0	52	38	15	15	30	1.88
1905032--1905089	19	3.1	18	80	11	71	32	12	17	37	1.86
1914036--1914106	33	2.2	33	89	0	106	45	15	11	28	1.80
1919310--1919488	90	2.0	90	89	0	277	34	15	18	31	1.92
1924830--1924897	27	2.5	27	95	0	118	29	5	30	33	1.81
1927284--1927400	52	2.3	51	86	1	153	41	15	13	29	1.85
1928135--1928452	52	6.1	52	78	7	252	34	13	23	27	1.93
1928148--1928467	104	3.1	104	80	2	347	34	13	24	27	1.93
1928605--1928675	33	2.2	32	82	5	88	29	18	25	26	1.98
1928626--1928741	33	3.6	31	80	6	106	25	16	28	29	1.97
1930236--1930261	13	2.0	13	100	0	52	30	15	15	38	1.88
1932562--1932634	20	3.6	20	81	3	101	35	13	19	31	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1932580--1932655	21	3.7	21	78	3	91	40	11	17	30	1.85
1932562--1932655	41	2.3	41	96	0	170	38	12	18	30	1.88
1932694--1932719	13	2.0	13	100	0	52	38	15	15	30	1.88
1938825--1938903	20	3.7	21	75	15	72	27	12	15	44	1.82
1938890--1938928	13	3.0	13	96	0	69	30	17	15	35	1.91
1940705--1940751	23	2.0	23	95	0	85	31	6	12	48	1.66
1940782--1940878	29	3.6	29	67	14	89	40	8	29	21	1.82
1940783--1940892	53	2.1	53	100	0	220	40	9	27	22	1.84
1941443--1941513	20	3.5	20	80	3	97	36	14	18	30	1.90
1941459--1941534	21	3.7	21	78	3	91	40	11	17	30	1.85

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