genome.fa.s9344.2.7.7.80.10.50.1000.11.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: VEPZ01009344.1 Hibiscus syriacus cultivar Beakdansim tig00113124_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4287485

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   

This is table  11  of  24  ( 2784 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)
1823075--1823139	21	3.4	21	68	24	70	24	21	12	41	1.87
1823053--1823158	36	2.9	36	97	0	194	24	21	13	40	1.89
1823584--1823645	20	3.1	20	86	9	74	30	1	0	67	1.00
1824651--1824677	12	2.2	12	100	0	54	37	0	0	62	0.95
1833040--1833077	20	1.9	20	94	0	67	34	21	13	31	1.91
1833373--1833409	11	3.5	11	78	14	51	45	21	21	10	1.82
1833371--1833414	20	2.2	20	100	0	88	43	27	18	11	1.84
1835496--1835521	2	13.0	2	100	0	52	50	0	0	50	1.00
1839295--1839353	23	2.6	23	88	0	91	40	6	18	33	1.77
1839447--1840347	200	4.5	196	82	6	1032	31	15	13	39	1.86
1843718--1843768	18	2.8	18	93	0	93	3	37	0	58	1.16
1843950--1844015	33	2.0	33	93	0	114	25	45	0	28	1.54
1844048--1844092	21	2.1	21	91	0	72	15	33	8	42	1.78
1845296--1845351	24	2.4	23	80	8	69	51	3	0	44	1.18
1847273--1847946	182	3.7	182	88	1	922	27	17	13	41	1.87
1860454--1860545	31	3.1	29	80	15	100	26	9	15	48	1.75
1860463--1860525	26	2.4	26	94	0	117	26	7	15	49	1.72
1860796--1860835	19	2.1	19	100	0	80	15	25	35	25	1.94
1861178--1861275	21	4.8	20	76	6	79	38	22	17	21	1.93
1861242--1861471	20	11.5	20	80	5	223	36	24	18	20	1.94
1862150--1862196	24	2.0	24	87	8	69	25	14	21	38	1.92
1862371--1862395	12	2.1	12	100	0	50	72	0	28	0	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1864673--1864812	33	4.2	33	90	6	230	45	19	22	12	1.84
1864654--1864812	67	2.4	67	89	4	234	45	20	21	13	1.84
1864673--1864850	51	3.5	51	78	18	203	44	19	23	12	1.84
1864840--1864956	53	2.2	52	93	3	207	15	23	17	43	1.87
1864840--1864956	19	6.6	19	74	20	119	15	23	17	43	1.87
1865064--1865097	14	2.4	14	90	0	59	44	14	5	35	1.70
1865163--1865198	12	3.0	12	83	0	54	63	16	0	19	1.30
1867010--1867182	19	9.6	19	78	12	159	46	23	19	11	1.82
1867104--1867160	14	3.7	14	77	20	60	45	22	21	10	1.82
1867085--1867177	33	2.8	33	95	0	168	47	21	20	10	1.80
1867178--1867305	19	7.3	19	73	19	116	8	17	28	45	1.78
1867178--1867268	32	2.8	34	90	6	143	7	18	28	45	1.77
1867353--1868097	93	8.1	93	98	1	1444	45	19	12	22	1.83
1867353--1868097	185	4.0	186	98	1	1444	45	19	12	22	1.83
1867353--1868097	277	2.7	278	98	0	1458	45	19	12	22	1.83
1869886--1869942	14	3.7	14	75	20	60	8	24	22	43	1.81
1869870--1869950	33	2.5	33	95	0	144	8	22	22	46	1.78
1869927--1870002	21	3.7	21	83	3	109	11	25	17	46	1.82
1869926--1870003	41	1.9	41	97	0	147	12	25	16	44	1.83
1870082--1870152	33	2.2	33	89	0	106	47	18	21	12	1.81
1870334--1870388	22	2.5	22	81	0	74	20	16	40	23	1.91
1870535--1870728	20	9.6	20	81	5	203	19	19	25	36	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1870537--1870708	60	2.8	60	82	0	227	20	18	25	35	1.95
1870715--1870797	21	4.0	21	73	6	78	25	16	24	33	1.96
1870695--1870793	42	2.4	43	77	11	100	21	18	23	37	1.94
1871225--1871323	25	3.8	24	74	14	83	43	7	3	46	1.46
1871224--1871325	26	3.9	27	71	13	95	44	6	2	46	1.45
1871316--1871349	2	17.5	2	93	6	61	50	0	0	50	1.00
1871811--1871877	28	2.4	28	89	0	98	22	19	23	34	1.97
1872309--1872415	36	3.0	36	62	28	84	14	14	17	52	1.75
1872640--1872680	22	1.9	21	90	5	64	24	0	4	70	1.06
1875701--1875773	25	2.8	27	79	10	80	21	2	9	65	1.34
1875727--1875774	13	3.6	13	80	2	60	20	2	10	66	1.32
1877422--1877473	23	2.3	23	89	0	86	34	19	1	44	1.62
1878314--1878372	21	2.8	21	76	5	57	38	3	10	47	1.54
1880951--1880997	20	2.4	19	82	10	67	53	10	17	19	1.72
1880739--1881155	181	2.3	182	89	2	624	41	13	17	27	1.87
1883391--1883455	21	3.1	21	90	0	94	43	10	30	15	1.81
1883489--1883554	33	2.0	33	90	0	105	28	0	48	22	1.51
1885346--1885394	19	2.6	19	96	0	89	32	2	10	55	1.45
1885628--1888201	200	12.8	200	95	0	4446	36	14	18	31	1.90
1889152--1889176	9	2.8	9	100	0	50	20	0	32	48	1.50
1890204--1891157	183	5.2	183	95	0	1680	35	14	16	33	1.89
1890204--1891157	365	2.6	365	95	1	1678	35	14	16	33	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1891031--1891277	120	2.1	120	95	0	440	33	14	14	37	1.87
1890849--1891442	303	2.0	302	95	0	1071	35	14	15	34	1.88
1894376--1894448	23	3.2	23	92	0	119	34	5	21	38	1.77
1894865--1894937	23	3.2	23	90	0	110	35	5	20	38	1.76
1895344--1895416	23	3.2	23	86	0	101	36	4	19	39	1.71
1893933--1897746	479	7.9	479	96	1	6745	40	7	11	40	1.69
1895823--1895886	23	2.8	23	90	0	92	39	4	20	35	1.73
1893933--1897746	968	3.9	957	95	2	6741	40	7	11	40	1.69
1896312--1896384	23	3.2	23	90	0	110	35	5	20	38	1.76
1896793--1896865	23	3.2	23	86	0	101	36	4	19	39	1.71
1897272--1897344	23	3.2	23	90	0	110	35	5	20	38	1.76
1897875--1897917	22	1.9	23	85	4	61	44	13	9	32	1.76
1905867--1905948	29	2.8	29	94	1	137	31	14	14	39	1.87
1910636--1910717	29	2.8	29	96	1	146	31	14	13	40	1.85
1916214--1916255	18	2.3	19	79	4	50	35	7	4	52	1.50
1935289--1935498	75	2.8	76	85	2	260	23	31	23	21	1.98
1943968--1944029	23	2.7	23	100	0	124	24	41	20	12	1.87
1943991--1944181	75	2.5	76	87	2	258	21	33	23	20	1.97
1956440--1956497	2	29.0	2	100	0	116	50	0	0	50	1.00
1958827--1958874	22	2.2	22	85	7	62	25	2	2	70	1.09
1964802--1964959	21	7.8	20	72	7	86	38	25	17	18	1.92
1964926--1965119	20	9.6	20	81	5	221	35	25	19	19	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1964926--1965119	60	3.2	60	83	0	253	35	25	19	19	1.95
1965501--1965571	33	2.2	33	89	0	106	11	23	16	47	1.79
1965651--1965760	21	5.8	20	74	17	108	45	18	24	11	1.83
1965644--1965760	41	3.1	38	81	14	145	46	17	25	11	1.81
1965711--1965767	14	3.7	14	75	20	60	43	22	24	8	1.81
1965703--1965783	33	2.5	33	95	0	144	46	22	22	8	1.78
1965779--1965876	19	5.7	19	70	22	81	10	24	22	42	1.84
1965801--1965890	14	5.7	14	73	23	72	8	24	23	43	1.82
1965784--1965898	33	3.5	33	93	0	203	9	23	20	46	1.80
1967596--1968069	93	5.1	93	99	0	921	22	12	18	45	1.83
1968113--1968241	19	7.3	19	75	17	125	45	28	17	8	1.77
1968149--1968241	33	2.8	32	91	4	150	46	27	18	7	1.76
1968113--1968241	52	2.5	52	74	14	140	45	28	17	8	1.77
1968237--1968371	19	7.6	19	75	16	128	11	19	23	45	1.82
1968259--1968315	14	3.7	14	77	20	60	10	21	22	45	1.82
1968242--1968334	33	2.8	33	95	0	168	10	20	21	47	1.80
1970297--1970332	14	2.6	14	95	0	63	33	0	22	44	1.53
1970439--1970536	19	5.4	19	84	13	143	45	17	22	14	1.84
1970439--1970555	53	2.2	53	98	1	227	44	17	23	13	1.85
1973070--1973116	24	2.0	24	87	8	69	38	21	14	25	1.92
1973799--1974127	20	16.5	20	86	5	396	20	18	25	35	1.95
1976194--1976231	20	1.9	20	88	0	58	36	7	10	44	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1982452--1982498	22	2.1	22	88	4	67	25	10	23	40	1.87
1985083--1985125	17	2.5	17	84	3	59	53	0	0	46	1.00
1988656--1988712	23	2.5	22	83	5	78	19	29	28	22	1.98
1988667--1988710	23	1.9	23	95	0	79	20	27	29	22	1.99
1988643--1988727	22	3.9	21	76	15	73	20	27	29	23	1.99
1994250--1994307	20	2.6	23	86	10	77	32	18	20	27	1.97
1997931--1997967	13	2.7	14	84	16	51	67	0	5	27	1.12
1998429--1998991	212	2.6	213	90	4	853	22	12	27	38	1.90
1998941--1999014	38	2.0	38	94	2	132	12	9	37	40	1.75
1998723--1999315	254	2.4	239	88	7	864	23	11	28	36	1.90

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