genome.fa.s36.2.7.7.80.10.50.1000.11.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: Scaffold36
Parameters: 2 7 7 80 10 50 1000
Length:  4808052

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   

This is table  11  of  28  ( 3342 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)
1721664--1721705	21	1.9	23	85	9	61	50	4	0	45	1.23
1722296--1722404	37	3.0	37	71	19	95	47	0	1	50	1.11
1722346--1722392	21	2.2	21	77	7	51	51	0	0	48	1.00
1722373--1722414	13	3.4	12	84	12	50	59	0	0	40	0.97
1722525--1722595	4	17.8	4	79	0	70	40	0	9	49	1.36
1722525--1722595	10	7.1	10	80	0	70	40	0	9	49	1.36
1722522--1722595	22	3.4	22	86	0	103	40	0	10	48	1.38
1725045--1725100	12	4.6	12	74	12	51	37	3	1	57	1.27
1725078--1725119	15	2.7	15	82	14	50	40	0	2	57	1.12
1725856--1725905	26	1.9	26	95	0	91	48	2	26	24	1.62
1726399--1726707	169	1.8	169	96	0	573	34	14	9	41	1.78
1728028--1728056	2	14.5	2	100	0	58	48	0	0	51	1.00
1731328--1731380	5	9.8	5	84	13	54	18	5	0	75	0.99
1731333--1731396	28	2.3	27	81	7	67	23	6	0	70	1.10
1733600--1733650	27	1.9	27	84	4	68	64	3	1	29	1.22
1735308--1735424	10	11.4	10	70	17	71	33	0	5	59	1.27
1735331--1735425	41	2.4	39	76	10	102	33	1	7	57	1.33
1736084--1736127	18	2.6	18	78	7	56	43	4	0	52	1.22
1736318--1736797	237	2.0	235	85	6	650	38	14	9	37	1.80
1737114--1737138	2	12.5	2	100	0	50	48	0	0	52	1.00
1737387--1737464	32	2.6	29	75	18	79	41	2	2	53	1.28
1737690--1737716	3	9.0	3	100	0	54	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1738227--1738264	2	19.0	2	88	0	58	44	52	2	0	1.14
1738602--1738636	15	2.2	16	95	5	63	31	0	11	57	1.34
1743867--1743896	2	15.0	2	92	0	51	46	0	3	50	1.18
1744086--1744128	21	2.2	20	84	12	54	67	4	2	25	1.22
1744235--1744271	20	1.9	20	94	5	67	56	0	0	43	0.99
1746712--1746778	36	1.9	34	84	6	89	53	0	0	46	1.00
1749378--1749448	21	3.5	20	79	11	81	57	5	0	36	1.22
1749378--1749453	9	7.7	9	72	22	55	60	5	0	34	1.19
1750138--1750166	2	14.5	2	100	0	58	48	0	0	51	1.00
1754301--1754417	2	58.5	2	89	0	180	46	0	4	48	1.27
1754687--1754787	29	3.2	29	73	24	96	51	0	1	46	1.12
1755855--1755914	26	2.3	26	85	5	77	46	10	6	36	1.64
1756924--1756975	17	2.9	18	75	16	54	48	0	0	51	1.00
1757299--1757346	21	2.3	21	82	7	53	66	0	2	31	1.03
1758078--1758110	2	16.5	2	100	0	66	48	0	0	51	1.00
1765825--1765861	18	2.1	18	100	0	74	32	5	10	51	1.60
1766462--1766563	49	2.1	49	94	0	177	46	2	2	48	1.32
1769422--1769464	19	2.2	20	83	4	52	34	2	2	60	1.22
1769516--1769571	24	2.3	25	84	9	71	42	1	5	50	1.35
1772726--1772778	24	2.2	24	86	3	72	50	0	1	47	1.12
1773496--1773522	2	13.5	2	100	0	54	0	0	48	51	1.00
1773522--1773564	2	21.5	2	100	0	86	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1773864--1773903	21	2.0	21	90	5	64	75	2	5	17	1.10
1774482--1774507	2	13.0	2	100	0	52	50	0	0	50	1.00
1777911--1777944	6	5.7	6	89	0	50	70	2	0	26	1.01
1778437--1778488	21	2.4	21	84	9	61	42	0	3	53	1.19
1779795--1779830	2	18.0	2	91	0	54	52	2	0	44	1.15
1780854--1780890	2	18.5	2	100	0	74	51	0	0	48	1.00
1781973--1782011	15	2.6	16	88	8	55	51	5	0	43	1.24
1781984--1782023	15	2.6	15	88	4	53	57	2	0	40	1.12
1783525--1783556	3	10.7	3	100	0	64	34	0	0	65	0.93
1784615--1784643	2	14.5	2	100	0	58	51	0	0	48	1.00
1785682--1785735	27	2.0	27	100	0	108	37	0	7	55	1.28
1789153--1789193	10	4.4	10	82	17	61	36	0	0	63	0.95
1789154--1789193	9	4.4	9	84	9	55	37	0	0	62	0.95
1789208--1789235	2	14.0	2	100	0	56	50	0	0	50	1.00
1791130--1791169	20	2.0	20	85	9	55	50	0	0	50	1.00
1792069--1792116	16	2.9	16	76	17	53	54	0	2	43	1.12
1792558--1792626	17	4.0	17	72	9	59	47	0	0	52	1.00
1792584--1792626	18	2.5	17	77	7	52	44	0	0	55	0.99
1792599--1792673	28	3.0	25	81	11	75	50	0	0	49	1.00
1792592--1792674	24	3.6	22	75	16	80	50	0	0	49	1.00
1793192--1793228	19	2.0	19	85	15	51	0	16	2	81	0.81
1794724--1794766	20	2.2	20	83	8	52	48	2	6	41	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1796350--1796444	24	4.1	24	76	11	83	45	0	1	53	1.07
1796350--1796444	47	2.0	46	84	9	122	45	0	1	53	1.07
1809114--1809181	28	2.6	25	84	9	82	51	0	0	48	1.00
1817498--1817526	2	14.5	2	100	0	58	51	48	0	0	1.00
1821947--1821981	13	2.7	13	90	0	61	34	40	0	25	1.56
1823131--1823180	2	25.0	2	95	0	91	52	0	48	0	1.00
1824712--1824763	22	2.3	22	86	3	68	34	1	0	63	1.06
1824732--1824766	17	2.1	17	89	10	54	31	0	0	68	0.90
1824850--1824966	14	8.9	14	68	22	58	39	1	0	58	1.08
1824852--1824913	23	2.7	22	73	20	56	43	0	0	56	0.99
1824861--1824961	32	3.1	30	74	19	87	40	1	0	57	1.10
1825169--1825238	19	3.7	19	73	7	70	55	0	1	42	1.08
1825289--1825327	19	2.2	17	86	9	51	41	7	0	51	1.31
1825543--1825606	29	2.2	28	78	8	67	45	1	0	53	1.10
1825561--1825602	16	2.6	15	85	14	57	42	0	0	57	0.99
1825567--1825671	25	4.0	25	72	19	70	41	0	0	58	0.98
1830720--1830773	17	2.9	19	84	13	60	33	3	1	61	1.25
1834337--1834372	2	18.0	2	88	11	56	50	0	2	47	1.15
1834327--1834372	14	3.1	15	87	12	60	47	2	2	47	1.26
1839796--1839851	23	2.4	23	82	11	62	30	1	0	67	1.01
1839806--1839851	19	2.4	18	85	7	56	30	2	0	67	1.03
1840220--1840250	2	15.5	2	100	0	62	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1843653--1843731	37	2.3	33	78	12	79	55	1	1	41	1.16
1848371--1848421	19	2.6	19	78	3	57	52	0	0	47	1.00
1851495--1851519	3	8.3	3	100	0	50	0	32	0	68	0.90
1852559--1852607	21	2.4	21	79	3	55	46	2	0	51	1.12
1854957--1855010	24	2.2	25	83	6	65	48	1	0	50	1.11
1854965--1855032	25	2.8	24	80	6	73	48	0	0	51	1.00
1854975--1855040	30	2.2	30	86	7	91	42	0	0	57	0.98
1854990--1855037	25	2.0	25	87	4	71	43	0	0	56	0.99
1855937--1855982	19	2.5	19	73	16	51	34	15	0	50	1.44
1857134--1857209	29	2.7	28	75	6	73	53	2	0	43	1.14
1858057--1858148	16	5.7	16	74	13	73	53	2	1	43	1.20
1858057--1858147	32	2.7	33	81	10	105	52	2	1	43	1.20
1860736--1860761	2	13.0	2	100	0	52	50	0	0	50	1.00
1861159--1861303	34	4.3	34	81	6	170	45	24	3	26	1.69
1861159--1861307	68	2.2	67	86	3	210	45	23	3	27	1.68
1865365--1865419	19	2.9	19	86	0	74	34	16	18	30	1.93
1865723--1865836	34	3.4	34	76	4	122	45	20	3	30	1.68
1865723--1865872	68	2.2	68	82	0	192	44	20	4	30	1.70
1870567--1870599	2	16.5	2	100	0	66	48	0	0	51	1.00
1871903--1871932	15	1.9	16	93	6	53	60	0	0	40	0.97
1873451--1873500	19	2.7	18	87	6	73	4	10	0	86	0.71
1873694--1873736	22	2.0	22	90	4	70	2	39	0	58	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1874206--1874259	26	2.2	26	83	12	69	48	0	1	50	1.11
1875637--1875857	34	6.5	33	84	5	280	40	26	7	25	1.82
1875637--1875857	102	2.2	101	89	1	352	40	26	7	25	1.82
1880260--1880478	34	6.5	33	82	9	262	41	26	7	24	1.82
1880260--1880478	102	2.2	101	88	3	341	41	26	7	24	1.82
1881280--1881323	21	2.1	21	86	0	61	31	4	4	59	1.38
1885692--1885764	31	2.4	31	88	0	110	46	10	13	28	1.77
1890876--1890933	21	2.7	21	83	5	62	37	5	1	55	1.33
1898533--1898596	32	2.0	32	85	11	87	64	0	1	34	1.03
1898629--1898658	14	2.1	14	93	0	51	56	0	0	43	0.99

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28