genome.fa.s7725.2.7.7.80.10.50.1000.9.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: VEPZ01007725.1 Hibiscus syriacus cultivar Beakdansim tig00109972_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3026330

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

This is table  9  of  14  ( 1646 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)
1839159--1839198	20	2.1	19	90	4	62	35	7	32	25	1.84
1843726--1843815	23	3.8	24	82	1	94	27	14	17	40	1.89
1843776--1843825	24	2.1	24	88	0	73	32	12	18	38	1.87
1843893--1843967	35	2.1	35	92	0	123	9	28	29	33	1.88
1849121--1849210	23	3.8	24	82	1	94	27	14	17	40	1.89
1849171--1849220	24	2.1	24	88	0	73	32	12	18	38	1.87
1849289--1849363	35	2.1	35	92	0	123	9	28	29	33	1.88
1850046--1850074	2	15.0	2	92	7	51	51	0	0	48	1.00
1853569--1853626	23	2.5	24	78	13	68	43	0	1	55	1.10
1855033--1855097	34	1.9	33	84	9	87	43	0	4	52	1.22
1862561--1862658	49	2.0	49	100	0	196	36	10	16	36	1.82
1864156--1864198	18	2.4	18	100	0	86	41	20	18	18	1.90
1864808--1864897	44	2.0	44	95	0	162	35	15	12	36	1.85
1864881--1864915	18	2.0	18	94	5	63	34	17	0	48	1.47
1867621--1867662	22	2.0	21	90	4	66	23	23	23	28	2.00
1871162--1871493	166	2.0	166	98	0	646	26	13	15	44	1.84
1872977--1873015	16	2.4	17	87	12	55	66	2	2	28	1.18
1875886--1875927	20	2.1	20	90	0	66	38	19	28	14	1.90
1881262--1881299	18	2.2	17	95	4	67	57	15	5	21	1.57
1884826--1884853	2	14.0	2	100	0	56	50	0	0	50	1.00
1886984--1887027	2	22.5	2	95	4	81	50	0	0	50	1.00
1888393--1888808	205	2.0	208	88	1	622	34	9	21	34	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1890795--1890956	60	2.7	59	77	7	168	33	20	6	40	1.77
1895514--1895743	111	2.0	113	94	5	405	37	10	16	35	1.83
1897095--1897152	22	2.9	19	87	10	73	22	34	25	17	1.96
1900007--1900031	12	2.1	12	100	0	50	60	8	24	8	1.52
1902707--1902763	26	2.2	26	84	12	73	49	0	3	47	1.18
1917246--1917289	22	2.0	22	100	0	88	54	13	18	13	1.71
1918473--1918523	27	1.9	26	84	11	68	33	9	0	56	1.32
1919676--1919741	31	2.1	31	91	5	107	51	18	15	15	1.77
1921805--1922267	231	2.0	234	93	2	792	36	23	10	30	1.88
1924203--1924275	32	2.3	32	90	0	110	34	16	19	30	1.94
1940112--1940136	12	2.1	12	100	0	50	24	16	28	32	1.96
1942795--1942850	28	2.0	29	82	10	71	7	28	3	60	1.40
1956241--1956285	24	1.9	23	86	13	65	20	6	0	73	1.05
1964520--1964581	22	2.8	20	76	18	54	50	1	3	45	1.27
1964854--1964879	5	5.2	5	100	0	52	80	0	0	19	0.71
1965018--1965048	12	2.5	13	94	5	55	6	9	35	48	1.62
1965092--1965181	2	51.0	2	72	24	51	42	0	0	57	0.98
1965106--1965190	34	2.5	34	96	0	152	41	0	0	58	0.98
1965091--1965169	10	8.7	9	75	19	58	40	0	0	59	0.97
1965090--1965188	16	5.9	18	75	12	88	43	0	0	56	0.99
1967419--1967454	2	18.0	2	100	0	72	50	0	0	50	1.00
1968367--1968419	26	2.0	26	88	0	79	30	7	18	43	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1968893--1968969	35	2.2	35	85	0	109	41	19	1	37	1.60
1979878--1979958	32	2.5	32	81	0	90	30	17	16	35	1.92
1985468--1985493	2	13.0	2	100	0	52	50	0	0	50	1.00
1989655--1989732	28	2.6	30	71	13	72	53	7	8	29	1.60
1992662--1992690	14	2.0	15	93	6	51	44	0	13	41	1.44
1993948--1994290	163	2.1	163	86	4	478	35	16	16	31	1.91
1996449--1996509	21	3.2	21	65	29	64	31	4	21	42	1.74
1996441--1996560	35	3.3	36	88	6	172	32	5	19	43	1.72
2001065--2001179	35	3.2	35	86	4	151	33	3	19	44	1.67
2001058--2001176	36	3.3	37	84	12	158	32	4	18	44	1.69
2010549--2010591	23	2.0	22	81	9	52	34	11	16	37	1.85
2010739--2010770	2	16.0	2	100	0	64	50	0	0	50	1.00
2025495--2025547	21	2.5	21	84	0	70	20	26	18	33	1.96
2025537--2025623	20	4.3	20	78	5	95	36	19	20	22	1.95
2026482--2026535	24	2.2	24	93	0	90	20	18	20	40	1.91
2028934--2029039	20	5.6	20	76	15	118	35	23	21	18	1.95
2029046--2029091	19	2.4	19	100	0	92	47	17	19	15	1.82
2028993--2029105	52	2.1	54	83	3	140	40	19	23	15	1.90
2029084--2029115	14	2.3	14	100	0	64	37	21	25	15	1.93
2029156--2029251	33	2.9	34	90	3	149	13	22	20	42	1.87
2029353--2029389	14	2.6	14	86	0	56	48	21	0	29	1.50
2030723--2030767	21	2.3	18	81	11	54	24	11	42	22	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2030677--2030788	42	2.7	42	76	5	111	22	17	38	21	1.93
2031260--2031453	20	10.4	20	75	16	166	41	21	18	19	1.91
2031422--2031460	20	2.0	20	89	0	60	33	20	20	25	1.97
2031460--2031523	18	3.7	18	74	20	55	20	21	20	37	1.94
2033388--2033451	20	3.2	20	86	2	94	50	21	15	12	1.77
2033467--2033515	20	2.5	20	75	0	53	22	18	22	36	1.95
2034102--2034195	20	4.7	20	82	2	125	20	21	21	37	1.95
2034082--2034195	61	1.9	60	88	1	174	21	21	21	35	1.96
2034192--2034252	21	2.9	21	95	0	104	36	18	27	18	1.94
2034265--2034320	20	2.8	21	70	8	53	26	17	28	26	1.98
2036947--2036973	2	13.5	2	100	0	54	48	0	0	51	1.00
2041030--2041277	124	2.0	124	100	0	496	40	17	17	24	1.91
2042389--2042435	21	2.3	21	89	10	71	44	0	0	55	0.99
2042398--2042447	21	2.4	21	86	6	66	54	0	0	46	1.00
2042465--2042504	14	2.8	14	92	3	62	52	0	0	47	1.00
2042405--2042508	56	1.9	54	86	7	147	51	0	0	46	1.13
2042430--2042513	27	3.0	27	67	16	64	48	1	1	48	1.16
2045271--2045547	136	2.0	139	97	2	533	28	13	21	36	1.92
2051583--2051651	28	2.6	25	78	15	66	40	4	0	55	1.20
2056729--2056758	14	2.1	14	93	0	51	50	16	20	13	1.78
2056984--2057114	57	2.3	57	85	2	165	27	14	22	35	1.93
2057103--2057149	20	2.3	20	96	0	85	17	23	14	44	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2063062--2063093	12	2.7	12	95	0	55	31	50	9	9	1.66
2067587--2067627	2	20.5	2	100	0	82	48	0	0	51	1.00
2075110--2075138	3	9.7	3	100	0	58	34	0	0	65	0.93
2075409--2075503	3	31.7	3	91	0	154	35	2	0	62	1.07
2075967--2076005	19	2.0	19	90	5	60	71	7	20	0	1.10
2088301--2088381	5	16.2	5	75	14	78	81	0	16	2	0.80
2088305--2088382	9	9.0	9	74	22	69	80	0	16	2	0.82
2088301--2088382	24	3.5	24	78	8	98	80	0	17	2	0.82
2088304--2088371	15	4.5	15	85	8	86	82	0	14	2	0.79
2088710--2088754	18	2.6	18	89	6	67	31	6	6	55	1.52
2089505--2089916	83	4.9	83	96	0	761	27	12	21	38	1.90
2089505--2089916	167	2.5	166	96	0	761	27	12	21	38	1.90
2090644--2091410	113	6.8	112	92	3	1236	37	11	19	31	1.88
2090636--2091410	339	2.3	339	94	2	1394	37	11	19	31	1.88
2091664--2091737	3	24.7	3	91	0	121	35	2	0	62	1.10
2092203--2092240	18	2.1	18	90	5	58	71	7	21	0	1.11
2093775--2094143	20	18.5	20	85	4	458	34	26	18	20	1.96
2094814--2094860	24	2.0	24	87	8	69	25	14	21	38	1.92
2095034--2095058	12	2.1	12	100	0	50	72	0	28	0	0.86
2097378--2097654	52	5.2	53	89	6	331	46	17	20	14	1.83
2097378--2097654	19	15.7	19	80	16	337	46	17	20	14	1.83
2097433--2097635	33	5.8	33	78	13	180	47	17	19	14	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2097351--2097692	71	4.9	71	76	17	296	45	18	20	15	1.85
2097416--2097686	142	1.9	141	94	3	483	46	17	19	15	1.84
2097683--2097784	19	5.6	19	85	12	151	14	23	17	44	1.86
2097891--2097927	14	2.6	14	91	0	65	45	21	0	32	1.52
2099826--2099944	19	6.6	19	75	14	81	44	24	19	11	1.84
2099940--2100067	19	7.3	19	73	19	116	8	17	28	45	1.78
2099940--2100031	33	2.8	33	93	3	150	7	18	28	45	1.76
2100111--2100583	93	5.1	93	99	0	939	46	19	12	21	1.83
2100111--2100583	185	2.5	186	99	0	939	46	19	12	21	1.83
2102284--2102373	14	5.7	14	74	23	81	42	23	25	8	1.83

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