genome.fa.s92.2.7.7.80.10.50.1000.15.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: Scaffold92
Parameters: 2 7 7 80 10 50 1000
Length:  2337674

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

This is table  15  of  19  ( 2187 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)
1772357--1772438	32	2.7	31	80	14	84	53	0	0	46	1.00
1772413--1772454	20	2.1	20	86	8	59	59	0	0	40	0.97
1772375--1772501	27	4.8	26	70	18	84	57	0	0	40	1.10
1772449--1772497	16	2.8	17	84	9	55	65	2	2	30	1.15
1773745--1773783	20	1.9	20	84	5	51	30	2	5	61	1.31
1773837--1773870	17	1.9	18	88	5	52	32	2	5	58	1.37
1776824--1776884	20	3.3	18	86	8	79	55	1	0	42	1.09
1777536--1777575	20	2.0	20	90	9	64	35	0	2	62	1.09
1777782--1777841	15	4.1	14	75	10	50	56	0	3	40	1.16
1781647--1781681	7	4.9	7	89	3	52	54	0	0	45	0.99
1793847--1793924	16	4.9	16	72	12	70	58	5	2	33	1.33
1793881--1794068	14	13.1	14	68	19	77	52	4	1	42	1.30
1794026--1794070	15	3.1	14	87	6	63	48	2	0	48	1.13
1794836--1794899	28	2.3	28	83	2	76	32	3	0	64	1.10
1794926--1794959	17	2.1	17	94	5	61	29	5	5	58	1.45
1796131--1796186	17	3.4	17	72	16	55	58	3	0	37	1.15
1803542--1803589	24	2.0	24	87	0	69	56	2	4	37	1.30
1804232--1804330	40	2.5	39	75	6	119	55	2	8	34	1.41
1804762--1804812	21	2.4	21	77	6	59	35	5	9	49	1.60
1806248--1806287	18	2.2	18	86	13	55	30	2	0	67	1.04
1806894--1806970	2	38.5	2	96	0	136	48	1	1	49	1.17
1807209--1807257	20	2.3	20	86	10	62	59	2	0	38	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1808235--1808345	19	6.4	18	66	16	65	56	0	0	43	0.99
1808222--1808330	27	3.9	27	71	19	80	54	0	0	45	1.00
1808222--1808363	29	5.0	29	74	17	86	57	0	0	42	0.99
1808222--1808357	64	2.2	63	79	10	145	55	0	0	44	0.99
1812464--1812550	32	2.8	30	80	13	95	43	1	0	55	1.07
1812464--1812511	14	3.1	14	78	21	60	50	0	0	50	1.00
1812464--1812552	16	5.6	16	68	15	60	43	1	0	55	1.07
1812464--1812516	18	3.2	18	71	20	60	49	0	0	50	1.00
1813006--1813044	19	2.1	19	85	4	53	51	5	0	43	1.24
1815102--1815149	13	3.8	12	79	17	53	62	0	2	35	1.07
1815102--1815149	7	7.7	6	80	15	53	62	0	2	35	1.07
1815143--1815182	18	2.2	18	86	8	55	42	0	0	57	0.98
1815836--1815875	2	20.0	2	100	0	80	50	0	0	50	1.00
1821010--1821043	11	3.0	11	91	4	50	32	0	0	67	0.91
1821745--1821777	16	2.1	16	94	0	57	54	0	3	42	1.15
1822249--1822301	26	2.0	26	82	7	63	56	0	0	43	0.99
1824632--1824661	15	1.9	16	93	6	53	3	10	0	86	0.67
1829609--1829641	16	2.0	17	94	5	59	33	0	0	66	0.92
1830780--1830837	20	3.2	18	72	11	55	67	0	5	27	1.12
1832385--1832440	18	3.2	16	71	28	51	35	0	0	64	0.94
1837110--1837149	19	2.1	19	100	0	80	45	15	0	40	1.46
1837404--1837451	19	2.6	18	73	3	51	60	2	4	33	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1837919--1837973	6	10.4	5	78	21	51	43	0	0	56	0.99
1837942--1837975	16	2.1	16	89	10	52	41	0	0	58	0.98
1837919--1837973	10	5.2	10	78	22	51	43	0	0	56	0.99
1838236--1838275	21	1.9	21	89	0	62	40	5	30	25	1.77
1838280--1838324	17	2.6	17	85	0	54	31	8	4	55	1.51
1842955--1843003	16	3.1	16	85	14	66	48	2	0	48	1.12
1842961--1843009	15	3.3	15	78	18	57	46	0	0	53	1.00
1843674--1843713	18	2.2	19	86	4	55	52	2	12	32	1.52
1844999--1845257	50	5.2	50	91	4	416	29	19	22	28	1.98
1844999--1845257	100	2.6	100	96	1	475	29	19	22	28	1.98
1849651--1849909	50	5.2	50	93	0	430	30	19	21	28	1.98
1851103--1851150	15	3.2	15	81	0	60	60	0	0	39	0.97
1854013--1854043	13	2.4	13	88	0	53	0	3	25	70	1.02
1854936--1854995	20	3.0	20	78	9	77	38	10	20	31	1.85
1856576--1856601	13	2.0	13	100	0	52	38	15	15	30	1.88
1856558--1856622	34	2.0	33	90	6	105	43	16	12	27	1.84
1862757--1862794	13	2.9	13	96	0	67	34	18	15	31	1.92
1862906--1862951	21	2.2	20	81	11	58	32	19	4	43	1.71
1864557--1864589	16	2.1	16	100	0	66	36	0	33	30	1.58
1865358--1865383	13	2.0	13	100	0	52	38	15	15	30	1.88
1865340--1865404	34	2.0	33	90	6	105	43	16	12	27	1.84
1870741--1870861	52	2.3	52	97	0	224	28	18	18	34	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1870741--1870881	52	2.7	51	90	4	212	30	17	18	33	1.94
1870870--1870894	13	1.9	13	100	0	50	36	16	16	32	1.90
1870960--1870984	13	1.9	13	100	0	50	32	16	16	36	1.90
1870938--1871004	33	2.0	33	88	0	98	40	13	11	34	1.81
1871974--1872107	43	2.9	45	86	8	191	31	18	23	26	1.98
1871931--1872117	49	3.9	49	82	10	233	33	17	23	26	1.96
1871930--1872107	92	1.9	94	93	3	306	32	17	23	25	1.97
1872169--1872718	49	10.9	52	73	16	245	34	16	24	24	1.96
1871794--1872373	266	2.2	266	97	0	1097	35	15	24	24	1.94
1872240--1872557	43	6.9	45	81	11	387	31	18	25	24	1.98
1872196--1872557	92	3.9	92	97	1	652	32	18	24	24	1.97
1872582--1872718	55	2.5	55	80	3	154	34	16	24	24	1.96
1872799--1873826	34	29.9	33	85	7	1165	34	11	33	20	1.89
1872796--1873826	70	15.0	68	85	8	1194	34	11	33	20	1.89
1872799--1873798	176	5.8	176	90	5	1417	34	11	33	20	1.89
1872796--1873826	105	10.0	103	86	6	1182	34	11	33	20	1.89
1874810--1874845	16	2.2	17	90	9	58	0	5	8	86	0.72
1875086--1875161	1	76.0	1	73	0	62	3	0	9	86	0.68
1875086--1875135	12	4.5	12	80	19	72	0	0	14	86	0.58
1875086--1875161	10	7.5	10	85	7	84	3	0	9	86	0.68
1882039--1882159	52	2.3	52	97	0	224	28	18	18	34	1.94
1882039--1882179	52	2.7	51	90	4	212	30	17	18	33	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1882168--1882192	13	1.9	13	100	0	50	36	16	16	32	1.90
1882258--1882282	13	1.9	13	100	0	50	32	16	16	36	1.90
1882236--1882302	33	2.0	33	88	0	98	40	13	11	34	1.81
1884318--1884369	12	3.7	15	82	17	51	76	0	21	1	0.87
1884338--1884373	12	2.8	12	91	8	54	86	0	13	0	0.58
1884744--1884778	2	17.5	2	87	0	52	42	0	5	51	1.25
1884744--1884778	16	2.2	16	100	0	70	42	0	5	51	1.25
1890642--1890722	36	2.3	36	79	12	87	70	11	13	4	1.31
1894392--1894512	52	2.3	52	94	0	206	28	19	17	34	1.94
1894414--1894532	52	2.3	52	89	2	186	29	18	19	32	1.96
1894521--1894545	13	1.9	13	100	0	50	36	16	16	32	1.90
1894611--1894635	13	1.9	13	100	0	50	32	16	16	36	1.90
1894589--1894655	33	2.0	33	88	0	98	40	13	11	34	1.81
1898363--1898426	32	2.0	32	87	3	92	29	17	15	37	1.91
1899928--1899982	21	2.5	23	82	17	80	47	0	0	52	1.00
1899996--1900025	15	1.9	16	93	6	53	3	23	0	73	0.98
1900396--1900457	20	3.0	21	72	6	65	40	1	0	58	1.08
1900397--1900480	38	2.2	39	82	8	100	35	3	0	60	1.14
1904138--1904210	27	2.7	28	76	6	87	49	19	9	21	1.76
1905203--1905423	106	2.1	106	96	0	406	31	19	14	34	1.92
1908770--1908842	27	2.7	27	82	0	92	45	19	9	26	1.80
1910055--1910105	15	3.4	14	79	12	57	41	0	3	54	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1910144--1910191	24	2.0	24	95	0	87	47	0	6	45	1.27
1913273--1913302	16	1.9	15	93	6	51	83	0	16	0	0.65
1914353--1915023	336	2.0	336	94	0	1189	37	7	10	44	1.68
1916061--1916112	21	2.5	21	84	6	61	34	3	26	34	1.75
1921088--1921127	21	1.9	21	89	0	62	42	5	17	35	1.71
1922406--1922460	29	1.9	29	85	3	76	49	1	5	43	1.36
1922976--1923025	22	2.3	22	77	16	59	40	6	14	40	1.70
1923831--1923872	22	2.0	22	81	13	52	35	4	4	54	1.42
1923922--1923952	16	1.9	16	100	0	62	19	19	22	38	1.93
1924254--1924287	18	1.9	18	88	5	52	55	0	11	32	1.36

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