genome.fa.s132.2.7.7.80.10.50.1000.11.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: Scaffold132
Parameters: 2 7 7 80 10 50 1000
Length:  2458301

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

This is table  11  of  15  ( 1722 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)
1717601--1717645	22	2.0	22	91	8	74	37	0	0	62	0.96
1717747--1717785	14	2.8	14	88	0	51	38	0	10	51	1.36
1717885--1717937	3	17.7	3	80	0	61	35	24	0	39	1.56
1717882--1717955	6	12.3	6	91	0	85	32	21	0	45	1.52
1717911--1717963	18	2.9	17	78	10	52	28	16	0	54	1.43
1718245--1718323	29	2.7	30	78	4	97	35	5	2	56	1.35
1719990--1720062	36	2.0	36	100	0	146	30	19	5	45	1.73
1720329--1720360	16	2.0	16	93	0	55	59	6	0	34	1.23
1723796--1723852	17	3.4	17	78	7	53	36	1	0	61	1.07
1725415--1725455	2	20.5	2	89	0	64	46	0	2	51	1.14
1725710--1725756	24	2.0	24	87	8	69	40	0	0	59	0.97
1725712--1725756	23	1.9	24	86	4	65	40	0	0	60	0.97
1736471--1736495	7	3.6	7	100	0	50	68	0	0	32	0.90
1736972--1737025	10	5.4	10	79	0	54	48	11	1	38	1.50
1736981--1737007	2	13.5	2	100	0	54	51	0	0	48	1.00
1737100--1737145	25	1.9	25	82	8	60	60	0	2	36	1.09
1737271--1737330	22	2.5	25	82	17	74	58	1	0	40	1.08
1738098--1738127	15	2.1	14	93	6	51	20	10	3	66	1.35
1739099--1739136	19	2.0	19	89	0	58	63	0	0	36	0.95
1740951--1740976	6	4.3	6	100	0	52	19	0	15	65	1.27
1741511--1741550	16	2.5	16	87	0	62	27	0	0	72	0.85
1743665--1743694	14	2.1	14	93	0	51	30	13	23	33	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1744247--1744271	2	12.5	2	100	0	50	48	0	0	52	1.00
1745920--1746087	83	2.0	83	94	0	291	33	34	8	23	1.86
1752259--1752305	15	3.1	15	82	8	60	44	0	0	55	0.99
1753282--1753314	17	1.9	17	88	11	50	54	0	0	45	0.99
1755129--1755158	15	2.1	14	93	6	51	83	0	0	16	0.65
1755886--1755972	25	3.4	27	79	13	89	59	0	0	40	0.97
1755914--1755972	17	3.5	17	77	11	68	57	0	0	42	0.98
1756881--1756933	26	2.0	26	85	7	72	49	0	0	50	1.00
1756906--1756951	23	2.0	23	87	8	67	58	0	0	41	0.98
1757018--1757052	16	2.3	15	90	9	54	20	0	2	77	0.90
1757455--1757481	2	13.5	2	100	0	54	48	0	0	51	1.00
1757609--1757686	37	2.1	36	81	13	88	56	3	0	39	1.18
1757733--1757771	15	2.8	14	81	11	53	35	0	0	64	0.94
1757716--1757784	28	2.6	27	80	11	81	46	0	0	53	1.00
1764064--1764258	97	2.0	99	86	4	279	27	22	18	31	1.97
1772906--1772985	34	2.3	35	83	8	103	48	0	1	50	1.08
1774016--1774110	45	2.0	46	86	6	129	49	11	6	32	1.64
1774561--1774597	3	12.3	3	88	0	56	35	29	32	2	1.72
1774561--1774597	15	2.5	15	95	0	65	35	29	32	2	1.72
1781443--1781502	23	2.7	23	82	10	63	61	1	0	36	1.06
1781439--1781507	21	3.2	21	75	13	61	57	1	0	40	1.07
1781520--1781557	15	2.5	15	82	0	58	73	0	0	26	0.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1781362--1781657	130	2.3	128	83	7	361	56	2	1	40	1.19
1781941--1782021	23	3.5	23	77	11	76	28	2	4	64	1.27
1781963--1782037	23	3.2	23	75	9	80	30	1	2	65	1.15
1781940--1782037	46	2.1	46	81	10	119	31	2	4	62	1.25
1781927--1782037	47	2.4	47	80	7	127	36	1	3	58	1.26
1791456--1791485	12	2.5	12	94	0	51	53	13	26	6	1.64
1794935--1794961	1	27.0	1	100	0	54	100	0	0	0	0.00
1796962--1796987	3	8.7	3	100	0	52	65	0	34	0	0.93
1797305--1797343	2	19.5	2	94	0	69	51	2	46	0	1.14
1797442--1797480	14	2.8	14	88	0	60	2	12	0	84	0.72
1797591--1797651	23	2.7	22	78	14	61	52	0	1	45	1.10
1797674--1797717	23	1.9	23	81	9	54	43	0	0	56	0.99
1797785--1797822	20	1.9	20	84	10	51	39	0	0	60	0.97
1802798--1802826	13	2.1	14	93	6	51	51	0	0	48	1.00
1803059--1803087	10	3.0	10	95	5	51	72	0	0	27	0.85
1806329--1806391	23	2.7	23	78	11	65	39	0	0	60	0.97
1806678--1806715	14	2.6	15	83	4	51	39	0	0	60	0.97
1807659--1807683	8	3.1	8	100	0	50	88	0	0	12	0.53
1808585--1808610	3	8.7	3	100	0	52	69	0	0	30	0.89
1809616--1809669	26	2.0	27	85	10	74	31	9	1	57	1.41
1809855--1809901	2	24.0	2	82	4	60	51	2	2	44	1.25
1811112--1811199	27	3.3	27	91	0	140	27	30	15	26	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1813261--1813290	2	15.0	2	100	0	60	50	0	0	50	1.00
1815318--1815362	18	2.5	18	92	0	81	40	6	0	53	1.27
1816012--1816048	17	2.1	19	90	10	60	54	0	0	45	1.00
1816020--1816052	13	2.5	13	90	0	57	57	0	0	42	0.98
1816522--1816551	2	15.0	2	100	0	60	50	0	0	50	1.00
1816962--1817030	30	2.3	30	97	0	129	11	20	10	57	1.62
1817421--1817464	19	2.5	18	85	10	56	27	2	0	70	0.99
1818563--1818595	13	2.6	13	90	4	50	36	6	3	54	1.41
1818996--1819073	32	2.3	33	86	6	104	42	6	0	51	1.27
1823490--1823520	2	15.5	2	100	0	62	51	0	0	48	1.00
1824429--1824472	2	22.0	2	95	0	79	47	0	2	50	1.13
1826341--1826368	2	14.0	2	100	0	56	0	50	0	50	1.00
1827937--1828068	67	2.0	67	84	3	176	35	21	6	35	1.81
1832285--1832327	19	2.3	19	83	0	59	60	13	4	20	1.51
1836487--1836524	20	2.0	20	89	5	60	28	2	2	65	1.19
1837980--1838045	31	2.2	31	83	8	82	50	3	6	40	1.43
1837979--1838057	30	2.5	32	82	10	92	51	2	5	40	1.37
1837992--1838055	33	1.9	33	84	12	87	54	1	4	39	1.31
1838639--1838805	72	2.3	72	98	0	325	46	4	7	40	1.54
1839363--1839396	18	2.0	18	88	11	54	47	0	0	52	1.00
1841036--1841069	2	17.0	2	100	0	68	50	0	0	50	1.00
1844077--1844171	43	2.3	43	85	10	135	50	12	6	30	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1844617--1844660	19	2.3	19	88	0	61	31	0	4	63	1.14
1844820--1844849	3	10.3	3	92	7	53	70	0	0	30	0.88
1845135--1845160	2	13.0	2	100	0	52	50	0	0	50	1.00
1847030--1847079	24	2.1	24	81	7	57	58	6	0	36	1.23
1847070--1847104	8	4.4	8	92	0	52	37	0	11	51	1.38
1847074--1847108	12	2.9	12	91	0	52	34	0	14	51	1.42
1847455--1847522	35	1.9	35	87	0	100	45	10	4	39	1.58
1848100--1848243	71	2.0	71	84	0	189	40	11	12	35	1.79
1849024--1849083	2	30.0	2	86	0	75	50	8	0	41	1.33
1849026--1849083	16	3.6	16	90	0	89	50	8	0	41	1.33
1849360--1849396	3	12.3	3	100	0	74	32	0	0	67	0.91
1851220--1851260	2	20.5	2	100	0	82	48	0	0	51	1.00
1853210--1853624	171	2.5	164	79	9	439	39	11	13	36	1.80
1853292--1853647	171	2.1	169	85	3	482	39	10	14	35	1.81
1857147--1857177	10	3.2	10	95	4	55	93	6	0	0	0.35
1858639--1858764	26	5.1	25	64	18	66	55	0	1	42	1.15
1858626--1858663	20	1.9	20	88	0	58	60	0	0	39	0.97
1858622--1858760	60	2.3	58	77	11	129	56	0	1	41	1.13
1859540--1859580	7	5.9	7	100	0	82	29	29	41	0	1.56
1863714--1863738	2	12.5	2	100	0	50	52	48	0	0	1.00
1864868--1864916	21	2.3	21	89	0	71	2	26	4	67	1.19
1865543--1865584	20	2.1	20	86	8	59	59	0	0	40	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1865575--1865621	21	2.2	22	77	14	53	53	2	0	44	1.12
1865595--1865661	10	6.4	11	77	16	54	58	0	0	41	0.98
1883485--1883520	2	18.5	2	94	5	65	50	0	0	50	1.00
1883874--1883901	2	14.0	2	100	0	56	50	0	0	50	1.00
1887696--1887725	15	1.9	16	93	6	53	73	0	0	26	0.84
1887968--1888023	25	2.2	25	83	3	67	41	0	0	58	0.98
1887961--1888030	36	1.9	37	82	8	90	41	0	0	58	0.98
1887972--1888072	16	6.1	16	71	20	66	44	0	0	54	1.06
1887976--1888024	25	1.9	26	87	4	73	36	0	0	63	0.95
1888041--1888072	13	2.3	15	89	10	50	43	3	0	53	1.16

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