genome.fa.s230.2.7.7.80.10.50.1000.13.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: Scaffold230
Parameters: 2 7 7 80 10 50 1000
Length:  2055625

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

This is table  13  of  14  ( 1594 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)
1716442--1716481	16	2.6	16	92	4	64	40	0	0	60	0.97
1721420--1721451	2	16.0	2	100	0	64	50	0	0	50	1.00
1721770--1721796	2	13.5	2	100	0	54	0	48	0	51	1.00
1722597--1722646	24	2.0	26	88	7	77	44	0	2	54	1.11
1722901--1722949	25	2.0	25	87	0	71	51	2	0	46	1.12
1726825--1726855	2	15.5	2	100	0	62	51	0	0	48	1.00
1728283--1728312	16	1.9	16	93	6	53	60	6	10	23	1.52
1739030--1739140	52	2.0	53	83	8	134	42	18	19	18	1.90
1745730--1745779	24	2.1	24	96	0	91	52	8	22	18	1.71
1747018--1747046	13	2.1	14	93	6	51	51	24	0	24	1.48
1750729--1750764	14	2.4	15	86	13	56	41	0	0	58	0.98
1750807--1750840	15	2.1	17	89	10	54	44	0	0	55	0.99
1751205--1751257	25	2.1	26	89	3	81	50	0	0	49	1.00
1751233--1751305	25	3.0	24	73	15	69	56	1	4	38	1.27
1752152--1752190	13	2.9	14	80	7	53	53	0	0	46	1.00
1765603--1765628	4	6.5	4	100	0	52	76	0	0	23	0.78
1765923--1765952	3	10.0	3	100	0	60	33	0	0	66	0.92
1769365--1769465	40	2.5	41	83	4	143	45	7	11	34	1.70
1772173--1772233	28	2.1	29	90	3	97	19	26	13	40	1.88
1772713--1772740	2	14.0	2	100	0	56	50	0	0	50	1.00
1773505--1773541	19	1.9	19	89	10	58	32	0	0	67	0.91
1773740--1773784	18	2.4	19	81	11	56	57	0	0	42	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1774165--1774196	2	16.0	2	100	0	64	50	0	0	50	1.00
1777649--1777678	2	15.0	2	100	0	60	50	0	0	50	1.00
1778790--1778827	6	6.3	6	85	11	51	0	13	0	86	0.56
1779532--1779557	4	6.5	4	100	0	52	76	0	23	0	0.78
1780206--1780784	192	3.0	192	98	0	1122	37	5	8	48	1.55
1780770--1780822	25	2.1	26	82	3	63	35	5	1	56	1.34
1782044--1782110	27	2.6	25	76	21	66	40	0	1	58	1.07
1782750--1782805	28	2.0	28	96	0	103	17	23	35	23	1.95
1783165--1783189	2	12.5	2	100	0	50	48	0	0	52	1.00
1784301--1784339	6	6.2	6	91	5	51	69	17	12	0	1.19
1784301--1784334	7	5.1	7	89	10	54	70	14	14	0	1.17
1784301--1784339	13	3.0	13	82	14	53	69	17	12	0	1.19
1784622--1784646	5	5.0	5	100	0	50	20	0	40	40	1.52
1784795--1784820	3	8.7	3	100	0	52	0	34	0	65	0.93
1791959--1792002	16	2.8	16	80	16	56	59	2	0	38	1.10
1791935--1791992	21	2.9	19	80	19	66	58	3	0	37	1.15
1791950--1792027	32	2.5	31	79	14	79	56	5	2	35	1.35
1795131--1795190	30	1.9	32	86	10	88	50	0	0	50	1.00
1803494--1803522	2	14.5	2	100	0	58	0	51	0	48	1.00
1807741--1807871	69	1.9	69	85	3	183	30	24	20	24	1.99
1816576--1816616	21	1.9	21	85	5	55	65	4	4	24	1.32
1820365--1820394	14	2.1	14	93	0	51	23	0	0	76	0.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1820487--1820513	5	5.4	5	100	0	54	40	0	40	18	1.51
1821961--1822026	29	2.2	30	81	10	82	40	0	0	59	0.98
1822033--1822099	5	13.2	5	79	14	59	58	0	1	40	1.07
1828928--1829105	89	2.0	89	82	2	214	44	20	17	17	1.87
1830761--1830803	6	7.2	6	84	10	61	44	20	18	16	1.87
1830864--1830908	3	14.7	3	95	4	81	35	0	0	64	0.94
1832322--1832359	2	19.0	2	100	0	76	50	0	0	50	1.00
1838245--1838277	12	2.8	12	100	0	66	90	0	9	0	0.44
1840665--1840700	3	12.0	3	100	0	72	33	0	0	66	0.92
1849828--1849872	19	2.4	19	85	7	56	33	4	2	60	1.29
1852845--1852869	3	8.3	3	100	0	50	68	0	0	32	0.90
1855256--1855285	2	15.0	2	100	0	60	50	0	0	50	1.00
1855569--1855599	4	7.8	4	100	0	62	25	25	25	22	2.00
1862613--1862669	5	11.2	5	86	3	60	40	22	15	21	1.91
1870204--1870268	3	21.3	3	92	3	58	21	0	10	67	1.20
1876637--1876666	2	15.0	2	100	0	60	50	0	50	0	1.00
1883185--1883216	2	16.0	2	93	0	55	0	53	0	46	1.00
1883898--1883931	2	17.0	2	87	0	50	50	2	2	44	1.32
1883901--1883935	8	4.4	8	92	0	52	51	2	5	40	1.40
1883901--1883939	12	3.2	12	88	0	51	51	2	7	38	1.44
1884562--1884589	2	14.0	2	100	0	56	50	0	50	0	1.00
1885689--1885720	5	6.4	5	100	0	64	0	59	0	40	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1888176--1888218	19	2.3	18	80	11	50	37	0	0	62	0.95
1888216--1888273	25	2.2	27	81	9	75	53	0	0	46	1.00
1888338--1888379	21	2.0	22	85	4	59	52	2	0	45	1.13
1889141--1889189	24	2.1	23	84	3	62	28	0	4	67	1.09
1895046--1895088	15	2.8	15	82	3	50	48	2	2	46	1.27
1895555--1895614	12	5.8	10	75	16	52	56	0	3	40	1.16
1895569--1895614	21	2.3	19	85	7	56	54	0	4	41	1.20
1895879--1895926	22	2.2	22	85	7	62	39	2	0	58	1.10
1895962--1896005	21	2.1	21	83	8	54	70	0	0	29	0.88
1896307--1896766	170	2.7	170	97	1	850	32	1	10	55	1.42
1901904--1901933	2	15.0	2	100	0	60	0	50	0	50	1.00
1901949--1901997	23	2.1	23	88	0	80	30	20	6	42	1.76
1905970--1905994	12	2.1	12	100	0	50	52	16	0	32	1.44
1907384--1907426	19	2.3	18	80	11	50	37	0	0	62	0.95
1907414--1907489	27	2.8	27	74	6	73	50	0	0	50	1.00
1907544--1907585	21	2.0	22	85	4	59	52	2	0	45	1.13
1907579--1907606	2	14.0	2	100	0	56	50	0	0	50	1.00
1908351--1908399	24	2.1	23	84	3	62	28	0	4	67	1.09
1914258--1914300	15	2.8	15	82	3	50	48	2	2	46	1.27
1914773--1914832	12	5.8	10	75	16	52	56	0	3	40	1.16
1914787--1914832	21	2.3	19	85	7	56	54	0	4	41	1.20
1915097--1915145	23	2.2	23	85	10	66	38	2	0	59	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1915528--1915987	170	2.7	170	96	1	841	32	1	10	55	1.42
1919238--1919502	127	2.1	126	84	8	351	42	2	1	53	1.24
1921140--1921169	2	15.0	2	100	0	60	0	50	0	50	1.00
1921185--1921233	23	2.1	23	88	0	80	30	20	6	42	1.76
1931090--1931119	2	15.0	2	92	0	51	46	3	0	50	1.18
1935138--1935299	81	2.0	81	93	2	281	44	15	17	22	1.86
1937956--1938004	18	2.6	19	80	6	55	46	4	0	48	1.20
1938574--1938606	17	1.9	17	93	0	57	39	6	3	51	1.42
1944729--1944763	14	2.4	14	95	4	61	48	5	45	0	1.26
1944944--1944987	6	7.2	6	87	5	61	45	15	34	4	1.67
1945969--1946006	2	19.0	2	94	0	67	0	47	0	52	1.00
1948111--1948142	2	16.0	2	100	0	64	50	0	50	0	1.00
1955866--1955895	2	15.0	2	100	0	60	50	0	0	50	1.00
1956274--1956307	6	5.7	6	96	0	50	35	23	32	8	1.86
1956274--1956310	12	3.1	12	92	0	56	32	27	32	8	1.86
1956969--1957027	16	3.2	21	69	28	53	23	1	3	71	1.11
1956967--1957028	29	2.2	28	85	8	81	22	1	3	72	1.08
1957047--1957087	21	2.0	21	90	0	64	46	4	7	41	1.53
1959204--1959229	2	13.0	2	100	0	52	50	0	0	50	1.00
1959229--1959254	2	13.0	2	100	0	52	0	0	50	50	1.00
1959772--1959796	3	8.3	3	100	0	50	68	0	32	0	0.90
1963909--1963935	2	13.5	2	100	0	54	48	0	51	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1964274--1964321	23	2.1	23	88	7	71	68	0	2	29	1.01
1964269--1964317	23	2.3	21	78	21	57	63	0	2	34	1.06
1965721--1965753	7	4.9	7	88	7	50	84	0	3	12	0.72
1969677--1969707	2	15.5	2	93	0	53	48	0	0	51	1.00
1978788--1978815	14	2.0	14	100	0	56	21	21	42	14	1.88
1979777--1979825	25	2.0	23	81	14	55	53	0	4	42	1.20
1980865--1980891	3	9.0	3	100	0	54	33	0	0	66	0.92
1980956--1980983	2	14.0	2	100	0	56	50	0	0	50	1.00
1981173--1981207	2	17.5	2	100	0	70	51	0	0	48	1.00
1981917--1981949	2	16.5	2	100	0	66	48	0	0	51	1.00

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