genome.fa.s1700.2.7.7.80.10.50.1000.9.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: VEPZ01001700.1 Hibiscus syriacus cultivar Beakdansim tig00003398_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2632955

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

This is table  9  of  11  ( 1314 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)
1781474--1781536	18	3.3	19	82	17	69	47	0	0	52	1.00
1781532--1781576	23	2.0	23	86	0	63	53	2	2	42	1.25
1784721--1784756	17	2.1	17	94	0	63	33	30	19	16	1.94
1787446--1787534	41	2.2	41	89	0	142	20	26	22	30	1.98
1794248--1794380	60	2.2	60	81	9	148	37	18	14	30	1.90
1800742--1800779	15	2.5	15	87	8	51	23	2	0	73	0.95
1801848--1801877	13	2.3	13	100	0	60	76	0	0	23	0.78
1805219--1805313	3	32.0	3	82	2	111	64	0	3	32	1.10
1805230--1805327	12	8.5	11	79	14	58	63	0	5	31	1.16
1805561--1806015	119	3.9	118	94	2	749	27	20	13	37	1.91
1806659--1807249	50	11.8	50	98	0	1155	38	24	13	23	1.91
1808384--1808444	11	6.0	11	77	14	51	3	19	0	77	0.91
1808382--1808443	7	10.0	6	78	13	56	3	17	0	79	0.87
1808382--1808444	25	2.5	25	80	14	76	3	19	0	77	0.90
1819054--1819104	17	3.0	17	81	13	61	72	1	0	25	0.95
1820691--1820786	3	32.0	3	84	0	120	64	0	3	32	1.09
1820708--1820799	12	7.8	11	80	12	53	63	0	5	31	1.17
1825576--1825625	25	2.0	25	88	0	73	66	8	14	12	1.45
1831124--1831162	18	2.1	19	85	4	53	64	2	10	23	1.37
1831747--1831795	25	2.0	25	92	4	82	67	8	12	12	1.42
1833587--1833662	37	2.0	39	82	7	93	42	13	10	34	1.78
1833669--1833745	32	2.4	32	84	0	91	24	10	11	53	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1833694--1833760	32	2.1	32	83	5	82	25	7	11	55	1.62
1835459--1835501	20	2.2	20	91	0	68	34	20	11	32	1.89
1840326--1840388	27	2.3	27	100	0	126	7	9	44	38	1.66
1840399--1840437	20	2.1	19	85	9	53	23	0	25	51	1.49
1843707--1843773	33	2.0	33	97	0	125	26	17	25	29	1.98
1851175--1851203	8	3.8	8	95	4	51	89	0	0	10	0.48
1855158--1855193	17	2.1	17	94	0	63	16	44	25	13	1.85
1855207--1855358	59	2.6	59	87	5	211	31	6	23	38	1.81
1855207--1855358	29	5.2	29	91	4	209	31	6	23	38	1.81
1855214--1855387	59	3.0	58	78	10	183	33	6	22	37	1.79
1871653--1871803	29	5.2	30	85	3	184	31	6	21	40	1.79
1871653--1871829	29	6.1	29	83	3	171	32	6	21	40	1.78
1871656--1871829	88	2.0	87	83	7	219	32	6	21	39	1.79
1873607--1873685	31	2.5	31	80	8	90	32	8	15	43	1.77
1881933--1881988	23	2.5	22	77	8	67	21	32	25	21	1.98
1887260--1887393	49	2.7	49	84	5	173	56	12	11	19	1.65
1893199--1893244	23	2.0	23	82	0	56	32	15	10	41	1.82
1894883--1894935	26	2.0	26	92	0	88	28	15	24	32	1.95
1896248--1896308	19	3.2	19	82	15	65	21	9	1	67	1.29
1896247--1896308	20	3.3	19	80	10	65	22	9	1	66	1.30
1899327--1899455	28	4.6	28	93	0	213	33	20	10	34	1.88
1899769--1899827	19	3.1	19	77	0	64	33	15	27	23	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1900968--1901032	30	2.2	29	81	5	76	63	12	9	15	1.52
1906163--1906347	58	3.2	58	71	9	194	37	10	23	28	1.87
1906163--1906409	59	4.2	59	72	11	186	36	10	23	29	1.88
1906154--1906376	118	1.9	118	87	2	333	38	10	23	27	1.88
1906542--1906575	17	1.9	18	88	5	52	38	8	17	35	1.81
1906884--1906924	21	2.0	21	95	0	73	26	17	26	29	1.97
1906997--1907042	22	2.0	23	91	4	76	19	19	17	43	1.88
1908030--1908088	2	29.5	2	100	0	118	50	0	0	49	1.00
1917818--1917871	24	2.2	24	83	6	65	46	12	14	25	1.81
1920507--1920572	24	2.8	24	77	9	71	54	16	10	18	1.70
1929494--1929755	58	4.5	59	72	9	205	39	10	20	29	1.86
1929494--1929755	117	2.2	117	88	1	382	39	10	20	29	1.86
1929960--1929993	17	1.9	18	88	5	52	38	8	17	35	1.81
1936587--1936659	3	24.0	3	88	2	110	34	1	1	63	1.12
1938714--1938875	82	2.0	82	92	0	270	30	10	14	44	1.79
1948282--1948345	22	2.9	22	88	0	83	35	15	12	35	1.85
1948289--1948365	22	3.5	22	85	3	93	35	12	12	38	1.82
1949022--1949588	45	12.6	45	92	0	918	23	23	19	33	1.97
1949762--1949810	3	16.0	3	87	4	71	36	2	0	61	1.08
1949879--1949906	11	2.5	11	100	0	56	39	39	14	7	1.73
1957360--1957423	9	7.7	9	73	19	50	45	1	1	51	1.20
1957360--1957400	13	3.2	13	89	0	64	51	2	0	46	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1957473--1957632	2	79.0	2	66	16	62	50	1	8	40	1.40
1957479--1957540	21	2.9	21	78	9	63	54	0	6	38	1.26
1957484--1957630	34	4.5	33	76	14	108	49	1	8	40	1.42
1958489--1958562	14	5.2	14	76	12	71	28	24	18	28	1.98
1958496--1958564	28	2.4	30	85	7	99	26	26	18	28	1.98
1958526--1958567	14	3.0	14	82	6	50	28	23	16	30	1.96
1959597--1959631	17	2.0	17	88	5	52	48	11	17	22	1.79
1964742--1964766	12	2.1	12	100	0	50	8	36	0	56	1.29
1971925--1971988	29	2.2	30	85	2	85	37	4	25	32	1.77
1972948--1973048	33	3.1	33	98	0	193	23	18	26	30	1.98
1980339--1980524	89	2.1	89	85	4	250	30	22	22	25	1.99
1980339--1980524	44	4.2	43	80	6	210	30	22	22	25	1.99
1987109--1988142	516	2.0	518	95	1	1876	28	26	15	29	1.96
1989552--1989623	21	3.4	21	94	0	117	19	27	23	29	1.98
1989549--1989623	11	7.1	11	68	8	57	20	28	22	29	1.98
1999560--1999606	19	2.6	18	80	6	58	27	44	10	17	1.81
2002146--2002184	18	2.2	18	95	0	69	43	0	20	35	1.52
2004632--2004722	44	2.2	41	84	9	114	32	23	19	24	1.97
2006972--2007187	76	2.9	75	88	3	292	28	1	13	56	1.46
2006980--2007187	75	2.8	76	87	3	287	28	1	13	55	1.47
2007840--2007907	19	3.6	19	76	6	66	29	1	0	69	0.98
2007839--2007870	15	2.2	14	94	5	55	28	0	0	71	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2009796--2009851	19	2.8	20	76	17	62	16	8	1	73	1.17
2012622--2012658	18	2.0	19	89	5	58	24	0	0	75	0.80
2012628--2012675	18	2.7	18	80	0	51	29	0	0	70	0.87
2015913--2015954	18	2.3	18	100	0	84	19	50	21	9	1.75
2016523--2016697	44	4.0	44	90	0	269	33	20	21	24	1.97
2027221--2027483	139	1.9	138	88	1	402	46	8	7	36	1.64
2028246--2028283	15	2.5	15	91	0	58	44	5	10	39	1.61
2033640--2033679	21	1.9	21	94	0	71	65	10	17	7	1.46
2037761--2037807	13	3.5	13	83	13	60	80	0	17	2	0.80
2037761--2037804	17	2.5	18	81	3	54	81	0	15	2	0.78
2037761--2037809	22	2.2	23	85	3	64	81	0	16	2	0.78
2037775--2037810	5	7.0	5	87	6	54	80	0	19	0	0.71
2037761--2037810	15	3.3	16	86	8	61	80	0	18	2	0.82
2042051--2042089	14	2.9	14	92	3	62	79	5	15	0	0.90
2042051--2042098	22	2.2	22	85	7	62	79	4	16	0	0.89
2051893--2052230	132	2.6	132	83	2	410	32	18	18	30	1.95
2051912--2052269	132	2.7	132	81	7	345	32	18	18	30	1.95
2054899--2054931	14	2.4	14	90	10	50	30	3	6	60	1.36
2061600--2061635	4	8.8	4	87	6	54	22	0	2	75	0.94
2063917--2063955	20	2.0	20	89	0	60	25	17	12	43	1.85
2075445--2075499	17	2.8	19	79	15	60	45	9	20	25	1.80
2075423--2075644	118	1.9	118	81	3	268	38	15	17	28	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2075715--2075858	78	1.8	78	88	2	218	35	15	20	29	1.93
2075917--2076143	40	5.6	40	83	2	220	28	22	19	29	1.98
2075917--2076149	80	2.9	79	80	3	259	28	22	18	30	1.98
2078439--2078472	2	17.0	2	100	0	68	50	0	0	50	1.00
2080135--2080180	12	3.7	13	85	8	60	43	0	0	56	0.99
2081458--2081493	15	2.3	16	90	4	56	27	0	0	72	0.85
2081786--2081834	17	2.9	18	82	11	59	20	10	0	69	1.17
2081768--2081831	26	2.5	26	76	19	62	20	6	3	70	1.23
2086176--2086237	21	2.9	22	80	19	69	77	6	16	0	0.97
2086184--2086236	16	3.7	15	88	11	76	79	5	15	0	0.91

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