genome.fa.s220.2.7.7.80.10.50.1000.8.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: Scaffold220
Parameters: 2 7 7 80 10 50 1000
Length:  3999181

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

This is table  8  of  19  ( 2201 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)
1691927--1691968	18	2.4	18	84	11	52	26	11	14	47	1.78
1696157--1696189	7	4.7	7	92	0	57	0	0	12	87	0.53
1696869--1696906	2	19.0	2	100	0	76	0	50	0	50	1.00
1700315--1700356	21	2.0	21	81	9	50	26	7	2	64	1.32
1701746--1701771	2	13.0	2	100	0	52	50	0	0	50	1.00
1702020--1702051	2	16.5	2	93	6	57	50	0	0	50	1.00
1703637--1703665	2	14.5	2	100	0	58	48	0	0	51	1.00
1703684--1703708	2	12.5	2	100	0	50	52	0	0	48	1.00
1704293--1704362	30	2.3	30	83	9	81	38	5	0	55	1.24
1707107--1707179	38	1.9	37	86	2	101	53	0	0	46	1.00
1707107--1707179	37	2.0	37	83	5	94	53	0	0	46	1.00
1707242--1707287	19	2.5	18	82	3	56	60	4	0	34	1.16
1708169--1708207	2	20.0	2	94	5	71	51	0	0	48	1.00
1708920--1708950	2	16.0	2	93	6	55	51	0	48	0	1.00
1714606--1714648	13	3.3	12	78	15	50	18	2	0	79	0.85
1714607--1714649	15	3.1	14	83	9	54	16	2	0	81	0.79
1714976--1715017	15	2.9	15	86	13	61	28	0	2	69	1.01
1714976--1715022	14	3.3	14	82	14	60	29	0	4	65	1.11
1715004--1715058	28	1.9	28	85	3	74	41	0	1	56	1.10
1715245--1715346	39	2.6	39	73	11	93	49	0	1	48	1.19
1717007--1717031	2	12.5	2	100	0	50	48	0	0	52	1.00
1717771--1717797	2	13.5	2	100	0	54	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1717844--1717904	21	2.8	22	80	9	63	44	0	0	55	0.99
1717844--1717891	21	2.2	23	85	7	64	45	0	0	54	0.99
1719590--1719691	23	4.4	23	68	22	63	43	0	0	54	1.13
1719657--1719703	18	2.8	18	81	12	55	42	0	0	57	0.98
1719667--1719708	18	2.3	19	80	12	52	42	0	0	57	0.99
1722489--1722617	64	2.0	64	92	0	213	36	21	13	28	1.91
1725838--1725879	19	2.2	20	82	4	50	59	4	0	35	1.19
1726208--1726233	13	2.0	13	100	0	52	46	0	0	53	1.00
1727034--1727102	30	2.3	29	80	11	77	50	0	1	47	1.09
1727539--1727578	21	2.0	20	85	5	53	50	0	0	50	1.00
1728513--1728593	25	3.2	26	73	18	73	62	0	3	33	1.12
1728546--1728662	25	4.5	27	71	15	77	58	0	2	37	1.17
1728510--1728711	11	18.5	11	67	22	65	59	0	1	37	1.15
1729162--1729229	33	2.1	33	86	2	93	54	1	1	42	1.18
1729621--1729682	17	3.5	18	80	10	65	37	3	0	59	1.13
1729655--1729719	23	2.9	23	76	21	66	36	0	0	63	0.95
1729662--1729719	12	5.2	11	80	19	59	36	0	0	63	0.94
1731023--1731074	16	3.3	16	76	13	54	48	0	0	51	1.00
1735813--1735849	17	2.2	17	90	0	56	51	5	0	43	1.24
1735815--1735866	15	3.4	14	78	17	50	53	7	0	38	1.30
1736946--1736978	2	16.5	2	93	0	57	51	3	0	45	1.16
1738757--1738805	25	2.0	25	100	0	98	26	16	12	44	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1740066--1740090	2	12.5	2	100	0	50	48	0	0	52	1.00
1749847--1749871	2	12.5	2	100	0	50	48	0	0	52	1.00
1752057--1752127	29	2.5	28	80	10	81	40	1	0	57	1.07
1752072--1752165	45	2.0	49	82	17	119	42	1	1	55	1.14
1753574--1753606	2	16.5	2	93	0	57	48	0	0	51	1.00
1767094--1767119	13	2.0	13	100	0	52	46	0	0	53	1.00
1767794--1767845	20	2.7	20	81	3	70	61	0	0	38	0.96
1768026--1768060	2	17.5	2	100	0	70	48	0	0	51	1.00
1768719--1768753	18	1.9	18	88	0	52	54	0	2	42	1.15
1769361--1769393	15	2.3	15	89	5	50	72	0	6	21	1.05
1769545--1769827	142	2.0	142	100	0	566	24	16	20	38	1.93
1770146--1770177	2	16.0	2	100	0	64	50	0	0	50	1.00
1773058--1773107	23	2.2	23	85	0	64	28	0	2	70	0.99
1773048--1773107	12	5.0	12	74	13	52	28	0	3	68	1.05
1773144--1773186	21	2.0	22	86	8	63	41	2	0	55	1.12
1775645--1775681	17	2.2	17	90	4	58	59	0	2	37	1.12
1776794--1776834	2	20.5	2	100	0	82	48	0	0	51	1.00
1783680--1783713	2	17.0	2	100	0	68	50	0	0	50	1.00
1784667--1784708	18	2.3	19	80	12	52	61	4	26	7	1.42
1786802--1786846	23	1.9	23	82	13	56	60	20	8	11	1.57
1788061--1788112	20	2.5	20	84	6	59	57	1	0	40	1.10
1788353--1788382	15	1.9	16	93	6	53	50	0	3	46	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1799726--1799822	47	2.1	47	100	0	194	30	6	22	40	1.79
1801030--1801094	27	2.4	26	82	10	78	47	1	0	50	1.10
1801056--1801094	20	2.0	20	84	0	51	48	0	0	51	1.00
1802024--1802081	21	2.8	21	89	0	89	41	3	0	55	1.17
1802287--1802311	3	8.3	3	100	0	50	68	0	32	0	0.90
1802614--1802657	22	2.0	22	86	8	63	47	0	0	52	1.00
1809207--1809247	8	5.0	8	85	5	55	19	0	29	51	1.47
1810481--1810570	45	2.0	45	100	0	180	44	8	17	28	1.79
1816957--1816990	2	17.0	2	87	0	50	50	5	0	44	1.26
1817197--1817441	133	1.8	133	95	0	445	23	19	21	35	1.96
1823251--1823278	2	14.0	2	100	0	56	50	0	0	50	1.00
1826281--1826344	29	2.2	28	86	8	85	50	1	0	48	1.10
1830893--1830968	21	3.8	21	75	18	90	34	0	0	65	0.93
1830907--1830965	17	3.3	17	70	21	57	33	0	0	66	0.92
1830910--1830989	37	2.2	37	84	4	99	36	1	0	62	1.03
1830980--1831049	32	2.2	31	82	9	88	57	2	1	38	1.23
1831416--1831477	30	2.1	30	82	11	74	48	0	0	51	1.00
1833999--1834042	15	2.9	15	79	0	52	38	0	2	59	1.10
1834149--1834181	12	2.5	13	90	9	50	66	0	0	33	0.92
1834280--1834312	13	2.4	14	90	5	50	33	0	0	66	0.92
1834289--1834330	19	2.2	19	87	8	59	35	0	0	64	0.94
1842192--1842225	17	2.0	17	94	0	59	17	50	17	14	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1842357--1842385	13	2.3	13	94	5	51	68	31	0	0	0.89
1849071--1849123	26	2.0	26	82	7	63	37	0	3	58	1.16
1853972--1854005	16	2.1	16	100	0	68	0	17	35	47	1.48
1854492--1854552	23	2.6	23	79	10	61	45	1	0	52	1.10
1854940--1854984	14	3.3	14	85	11	58	42	0	0	57	0.98
1855932--1855967	2	18.0	2	100	0	72	50	0	0	50	1.00
1859161--1859200	19	2.1	19	90	0	62	40	17	12	30	1.86
1860655--1860689	16	2.2	16	89	0	52	54	28	0	17	1.43
1866800--1866832	5	6.8	5	86	6	50	78	0	3	18	0.87
1867725--1867767	9	4.8	9	85	0	59	53	0	0	46	1.00
1867725--1867767	18	2.4	18	96	0	77	53	0	0	46	1.00
1870933--1870965	12	2.8	12	95	0	57	27	0	6	66	1.15
1874465--1874504	2	20.0	2	89	0	62	45	0	50	5	1.23
1877053--1877130	32	2.4	32	85	10	104	43	1	0	55	1.08
1877043--1877130	16	5.4	17	74	22	73	43	1	0	55	1.07
1877040--1877142	27	4.0	26	70	18	74	41	1	0	55	1.17
1877107--1877171	21	3.5	19	79	10	64	35	1	1	61	1.15
1878649--1878715	19	3.5	19	73	13	57	58	1	0	40	1.07
1891465--1891514	23	2.3	22	83	13	59	60	2	0	38	1.09
1892072--1892101	2	15.5	2	93	6	53	50	0	0	50	1.00
1893558--1893616	27	2.3	25	80	8	64	52	1	0	45	1.10
1893699--1893740	16	2.6	18	82	17	56	42	0	0	57	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1893979--1894054	28	2.8	28	82	9	79	44	0	3	51	1.20
1894161--1894210	16	3.1	16	78	16	57	46	2	0	52	1.12
1894167--1894200	17	1.9	18	88	5	52	47	0	0	52	1.00
1894270--1894300	16	1.9	16	93	0	53	29	0	0	70	0.87
1894257--1894343	38	2.2	39	82	8	97	41	1	1	56	1.14
1900119--1900157	2	19.5	2	100	0	78	48	0	0	51	1.00
1902827--1902895	34	2.0	34	91	0	111	36	10	20	33	1.86
1904910--1904994	42	2.0	42	100	0	170	21	21	15	42	1.89
1904910--1904970	22	2.9	22	64	16	56	21	22	14	40	1.90
1904929--1904999	20	3.5	20	67	16	56	22	18	14	45	1.85

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