genome.fa.s8129.2.7.7.80.10.50.1000.8.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: VEPZ01008129.1 Hibiscus syriacus cultivar Beakdansim tig00110684_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2577775

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

This is table  8  of  10  ( 1095 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)
1752874--1753063	58	3.3	56	76	6	166	49	13	3	33	1.60
1760548--1760606	30	2.0	30	93	0	100	15	15	23	45	1.84
1765031--1765089	31	1.9	31	86	6	84	28	1	33	35	1.68
1766347--1766392	24	1.9	24	100	0	92	30	13	15	41	1.85
1770620--1770669	24	2.1	24	92	0	82	44	6	26	24	1.76
1771912--1771970	29	2.0	31	83	6	77	38	8	22	30	1.83
1786337--1786387	11	4.6	11	83	9	68	0	3	9	86	0.70
1786337--1786375	12	3.2	12	89	7	53	0	5	5	89	0.58
1798081--1798130	23	2.2	23	85	7	66	56	12	4	28	1.54
1798383--1798432	20	2.5	20	96	0	91	16	34	36	14	1.88
1804172--1804197	6	4.3	6	100	0	52	0	19	46	34	1.50
1813266--1813309	21	2.1	21	82	0	52	36	2	22	38	1.67
1813713--1813935	43	5.2	42	83	3	257	32	20	23	23	1.98
1814031--1814066	19	1.9	19	88	5	56	58	16	0	25	1.38
1817873--1818193	41	7.7	41	87	3	340	36	19	19	25	1.95
1828804--1828870	28	2.4	28	73	14	66	32	20	14	31	1.93
1852535--1852786	116	2.2	116	90	0	387	36	23	15	24	1.94
1854188--1854233	20	2.3	20	88	3	67	36	26	0	36	1.57
1854403--1854448	22	2.1	22	84	4	58	23	17	4	54	1.61
1855179--1855331	59	2.6	59	92	0	252	32	11	8	48	1.69
1856785--1856813	14	2.0	15	93	6	51	75	6	6	10	1.17
1857795--1857838	16	2.7	16	82	10	54	59	0	20	20	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1858571--1858820	46	5.4	45	83	7	272	22	19	12	44	1.85
1858741--1858892	26	6.3	26	76	18	168	19	22	13	45	1.84
1858643--1858970	164	2.0	164	89	2	498	22	20	11	45	1.84
1858571--1858820	92	2.7	92	84	5	319	22	19	12	44	1.85
1858741--1858892	72	2.1	72	95	2	270	19	22	13	45	1.84
1858689--1858938	118	2.1	118	88	2	378	22	21	12	44	1.84
1858807--1858973	46	3.6	45	90	2	253	21	23	10	44	1.83
1859170--1859422	68	3.7	68	89	2	346	28	25	15	30	1.96
1859639--1859803	59	2.8	59	83	0	206	33	16	12	37	1.86
1864068--1864407	46	7.1	46	84	6	385	21	20	12	45	1.84
1864171--1864243	20	3.3	20	71	20	65	20	23	12	43	1.85
1864140--1864407	26	11.0	26	76	13	266	21	19	13	45	1.84
1864594--1864788	68	2.9	68	82	0	219	30	24	12	31	1.93
1865005--1865169	59	2.8	58	81	4	179	31	18	12	37	1.88
1874221--1874260	19	2.1	19	85	0	53	17	7	7	67	1.38
1875069--1875144	35	2.2	35	92	0	125	39	23	1	35	1.63
1875534--1875781	130	1.9	130	93	0	424	36	15	12	35	1.86
1875548--1875812	130	2.0	129	81	4	309	39	13	13	33	1.83
1876245--1876278	16	2.0	18	88	11	54	64	5	2	26	1.30
1880735--1880799	30	2.2	29	94	2	112	23	40	9	27	1.85
1886638--1886670	16	2.1	16	94	0	57	42	30	9	18	1.81
1887548--1887579	2	16.0	2	100	0	64	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1891727--1891766	21	2.0	21	90	5	64	37	10	35	17	1.83
1891724--1891774	21	2.4	22	77	9	61	37	9	31	21	1.86
1900920--1900984	30	2.2	29	83	2	76	44	6	13	35	1.69
1905198--1905260	26	2.5	25	84	5	74	36	20	17	25	1.94
1930296--1930629	46	7.3	46	84	2	429	43	11	20	24	1.85
1937319--1937559	46	5.2	46	89	1	349	43	11	21	23	1.85
1942414--1942465	26	2.0	26	100	0	104	19	7	19	53	1.68
1944129--1944173	23	2.0	23	81	0	54	48	20	17	13	1.80
1953025--1953064	17	2.3	17	86	4	53	57	7	15	20	1.61
1962121--1962157	16	2.3	16	95	0	65	16	21	40	21	1.91
1963236--1963269	17	1.9	18	88	5	52	14	5	8	70	1.31
1969772--1969839	30	2.3	30	94	0	118	35	11	5	47	1.65
1973212--1973279	30	2.3	30	97	0	127	38	8	5	47	1.59
1975468--1975516	25	2.0	25	95	0	89	26	12	22	38	1.89
1975934--1975979	18	2.6	18	92	0	74	47	13	6	32	1.68
1976037--1976072	17	2.1	17	89	0	54	38	13	13	33	1.85
1978007--1978035	11	2.6	11	100	0	58	0	0	6	93	0.36
1986972--1987014	14	3.1	14	100	0	86	13	6	27	51	1.67
1987907--1987933	2	13.5	2	100	0	54	51	0	0	48	1.00
1995914--1996073	65	2.5	65	83	7	184	27	20	22	30	1.98
1995914--1996114	65	3.1	63	77	15	171	26	19	22	30	1.98
2001171--2001209	21	1.9	19	90	10	60	15	17	5	61	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2001171--2001216	21	2.1	22	84	4	58	15	17	4	63	1.47
2001507--2001563	23	2.5	23	91	0	87	33	0	36	29	1.58
2003432--2003469	20	1.9	20	88	0	58	39	21	0	39	1.53
2008549--2008824	53	5.2	53	86	1	347	36	18	17	28	1.93
2008551--2008824	106	2.6	106	88	1	388	36	18	17	28	1.93
2009507--2009555	20	2.4	21	80	16	59	28	16	14	40	1.87
2015614--2015769	53	2.9	53	90	1	251	36	17	16	30	1.91
2031781--2031834	27	2.0	27	100	0	108	29	3	25	40	1.73
2032676--2032720	16	2.8	16	96	0	81	42	0	20	37	1.52
2034282--2034623	54	6.3	54	85	1	452	31	19	20	27	1.97
2034664--2034803	49	2.8	47	73	9	118	37	14	20	27	1.92
2036788--2036813	2	13.0	2	100	0	52	50	0	0	50	1.00
2040221--2040569	54	6.5	54	86	2	452	33	21	18	26	1.97
2040583--2040729	48	3.0	48	78	2	159	35	13	25	25	1.93
2043396--2043429	12	2.8	12	95	0	59	20	17	38	23	1.93
2043577--2043623	22	2.1	23	88	4	69	12	10	17	59	1.60
2044771--2044801	15	2.1	15	93	0	53	41	3	19	35	1.67
2045762--2046908	593	1.9	592	88	0	1729	37	6	20	35	1.78
2047764--2047982	70	3.1	70	87	0	330	33	24	17	24	1.97
2049829--2049861	15	2.1	16	88	5	50	72	6	3	18	1.18
2049904--2049955	17	3.1	17	77	20	56	78	3	0	17	0.89
2050016--2050072	29	2.0	29	82	0	69	56	10	14	19	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2050064--2050165	50	2.1	48	83	3	123	58	6	10	23	1.55
2050651--2050704	27	2.0	27	100	0	108	40	22	18	18	1.91
2051530--2052879	39	34.7	39	85	2	1606	36	15	17	30	1.91
2055545--2055585	18	2.3	18	91	0	64	41	26	29	2	1.69
2061396--2061435	18	2.2	18	90	0	62	0	2	12	85	0.71
2061396--2061462	13	5.2	13	82	12	77	0	5	10	83	0.80
2061396--2061451	20	2.9	18	77	12	58	0	5	10	83	0.78
2067263--2067508	129	1.9	129	87	1	359	36	19	11	33	1.87
2075512--2075571	30	2.0	31	83	3	77	26	8	10	55	1.61
2076481--2076532	21	2.6	21	90	6	81	34	13	5	46	1.67
2077240--2077311	34	2.2	31	85	11	92	73	2	16	6	1.17
2078425--2078487	30	2.2	29	77	11	67	39	12	19	28	1.88
2079662--2079721	30	2.0	31	83	3	77	26	8	10	55	1.61
2080631--2080682	21	2.6	21	90	6	81	34	13	5	46	1.67
2087740--2087791	21	2.6	21	81	6	63	28	15	9	46	1.77
2088513--2088561	19	2.7	19	79	14	50	85	2	12	0	0.68
2091842--2091893	21	2.6	21	81	6	63	28	15	9	46	1.77
2099695--2099746	24	2.2	25	79	10	63	59	15	17	7	1.58
2099740--2099775	14	2.5	15	86	13	58	77	0	22	0	0.76
2106439--2106493	23	2.4	23	85	8	78	63	10	16	9	1.51
2108924--2108958	13	2.8	13	91	8	56	40	0	31	28	1.57
2110141--2110178	18	2.1	18	90	0	58	21	10	36	31	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2119020--2119056	15	2.4	16	90	4	58	70	5	10	13	1.32
2124160--2124197	18	2.1	18	95	0	67	21	7	36	34	1.82
2125493--2126907	709	2.0	708	88	1	2093	32	17	18	32	1.94
2130768--2130796	13	2.3	13	94	5	51	48	0	31	20	1.50
2133577--2133619	23	2.0	21	86	13	61	23	37	16	23	1.94
2140008--2140032	11	2.3	11	100	0	50	0	0	8	92	0.40
2144610--2144652	9	4.4	9	78	16	50	0	6	18	74	1.04
2144610--2144654	10	4.5	10	82	17	58	0	6	20	73	1.05
2144617--2144653	11	3.5	11	79	20	51	0	5	16	78	0.93
2144610--2144672	30	2.2	28	88	5	90	1	4	15	77	1.01

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