genome.fa.s9604.2.7.7.80.10.50.1000.11.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: VEPZ01009604.1 Hibiscus syriacus cultivar Beakdansim tig00116984_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3548142

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   

This is table  11  of  17  ( 1985 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)
1890542--1890590	23	2.1	23	84	0	71	40	16	12	30	1.85
1894839--1895193	188	1.9	188	86	2	507	46	10	6	36	1.64
1895300--1895342	19	2.2	19	83	8	50	39	6	9	44	1.64
1898278--1898708	198	2.2	196	87	3	625	44	10	7	37	1.67
1905252--1905281	2	15.0	2	100	0	60	50	0	0	50	1.00
1905406--1905474	3	22.3	3	82	5	84	39	0	1	59	1.06
1906813--1906873	18	3.3	18	75	13	61	36	0	1	62	1.05
1911514--1911541	12	2.3	12	100	0	56	64	0	0	35	0.94
1911510--1911543	12	2.6	14	81	18	54	64	0	0	35	0.94
1913025--1913074	17	2.7	19	84	12	68	52	2	0	46	1.12
1913050--1913139	25	3.5	26	75	20	91	56	0	1	42	1.06
1913070--1913146	24	3.2	24	77	15	81	55	0	1	42	1.07
1914655--1914685	11	2.8	11	95	0	53	51	6	41	0	1.27
1924979--1925032	19	3.1	19	70	24	55	44	0	1	53	1.11
1925520--1925546	11	2.5	11	100	0	54	70	0	0	29	0.88
1926490--1926605	2	62.0	2	74	13	104	49	0	0	50	1.00
1926490--1926590	46	2.2	45	92	3	168	48	0	0	51	1.00
1926967--1927101	71	1.9	68	94	4	234	31	7	28	33	1.85
1928083--1928217	70	1.9	69	81	10	159	50	5	4	39	1.47
1928024--1928430	189	2.2	187	84	5	525	46	8	5	39	1.57
1932349--1932413	29	2.2	29	86	0	85	15	26	36	21	1.93
1936469--1936543	30	2.5	30	82	6	82	52	14	1	32	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1937082--1937132	26	1.9	27	96	4	95	0	41	0	58	0.98
1937082--1937132	15	3.7	15	77	20	65	0	41	0	58	0.98
1937802--1937892	45	2.0	45	100	0	182	54	8	2	34	1.43
1946209--1946281	15	4.0	18	80	18	89	32	10	6	49	1.65
1946596--1946643	21	2.3	21	89	3	71	29	22	25	22	1.99
1947004--1947073	34	2.1	33	83	2	86	32	17	27	22	1.96
1947359--1947447	23	4.0	23	76	15	96	31	24	19	24	1.98
1948349--1948405	20	2.7	22	74	17	59	29	29	8	31	1.87
1950395--1950447	20	2.7	20	77	11	63	26	15	15	43	1.85
1952297--1952336	16	2.5	16	87	0	62	35	10	17	37	1.83
1967690--1967723	7	4.9	7	100	0	68	44	0	44	11	1.40
1974774--1974851	25	3.2	25	82	10	90	73	0	21	5	1.03
1974777--1974851	35	2.1	35	83	9	91	73	0	21	5	1.03
1974802--1974851	10	5.6	9	83	11	59	72	0	24	4	1.02
1974834--1974872	20	2.0	20	85	10	53	69	0	23	7	1.14
1976833--1977800	33	29.2	33	87	1	1314	39	19	20	20	1.93
1977773--1977872	44	2.3	44	82	0	110	33	23	16	28	1.95
1979177--1979234	17	3.2	17	79	11	62	18	0	5	75	0.98
1979171--1979234	26	2.5	26	82	14	80	18	0	4	76	0.95
1979197--1979239	17	2.6	16	78	10	50	25	0	2	72	0.97
1987283--1987344	30	2.1	30	100	0	124	41	3	29	25	1.71
1987330--1987391	32	1.9	32	96	0	115	40	11	14	33	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1988716--1988787	35	2.1	35	94	0	126	29	19	9	41	1.83
1989273--1989489	106	2.0	106	83	1	265	21	17	25	36	1.94
1989209--1989770	280	2.0	281	87	0	820	22	18	25	34	1.96
1989573--1989769	106	1.9	106	82	2	252	22	19	25	32	1.97
1993242--1993319	26	3.0	26	98	0	147	28	25	15	30	1.96
1998298--1998331	13	2.6	13	90	0	59	70	0	14	14	1.17
1998535--1998584	24	2.0	24	88	7	73	70	0	4	26	1.05
1998519--1998592	32	2.4	31	82	13	82	70	0	5	24	1.08
1998535--1998585	25	2.0	26	84	3	68	70	0	3	25	1.04
1998627--1998671	2	22.5	2	100	0	90	51	0	0	48	1.00
1998671--1998720	23	2.2	22	83	16	59	70	0	8	22	1.13
1999195--1999271	35	2.2	36	90	4	122	31	12	7	48	1.70
2003510--2003570	2	30.5	2	96	0	113	50	1	0	47	1.10
2011206--2011240	17	2.1	17	89	5	54	62	0	0	37	0.95
2011220--2011294	31	2.5	30	82	6	80	49	6	1	42	1.37
2011326--2011374	16	2.8	17	78	12	55	38	2	4	55	1.31
2011385--2011417	17	1.9	17	100	0	66	21	6	6	66	1.35
2015172--2015239	13	5.2	13	78	0	73	29	19	14	36	1.91
2015172--2015239	26	2.6	26	97	0	127	29	19	14	36	1.91
2021328--2021410	32	2.6	31	78	17	89	50	10	1	37	1.45
2021409--2021467	25	2.5	24	81	13	68	54	1	1	42	1.20
2021425--2021474	25	2.0	24	85	11	66	50	4	0	46	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2021613--2021645	17	1.9	17	100	0	66	21	6	6	66	1.35
2030695--2030846	55	2.8	55	95	1	270	30	17	21	30	1.96
2035776--2035842	30	2.2	30	86	5	91	16	31	20	31	1.95
2036984--2037010	6	4.5	6	100	0	54	51	0	0	48	1.00
2040533--2040601	29	2.4	29	74	11	70	23	15	7	53	1.67
2046309--2046376	27	2.6	27	95	4	122	41	16	11	30	1.84
2050705--2050769	13	4.8	13	71	26	55	16	49	20	13	1.80
2050725--2050763	5	7.2	5	83	16	51	17	53	23	5	1.63
2050725--2050769	23	2.0	23	100	0	90	17	51	22	8	1.73
2050713--2050758	18	2.6	18	100	0	92	17	52	21	8	1.71
2050777--2050853	29	2.7	29	87	0	100	22	9	27	41	1.83
2057938--2057968	13	2.4	13	94	0	53	16	48	19	16	1.81
2057987--2058062	29	2.6	29	89	0	107	22	9	26	42	1.83
2062321--2062350	13	2.3	13	100	0	60	46	6	6	40	1.56
2069447--2069517	7	10.3	7	71	14	58	16	21	11	50	1.76
2069437--2069483	20	2.3	20	88	0	67	17	17	10	55	1.69
2069449--2069540	28	3.3	28	86	7	116	17	21	11	48	1.79
2070893--2070980	10	9.5	8	81	17	68	78	1	15	4	0.97
2070892--2070955	21	3.2	20	82	4	67	81	1	10	6	0.94
2070919--2070984	18	3.8	17	76	13	64	77	0	19	3	0.90
2070898--2070972	27	2.6	28	81	12	82	78	1	16	4	0.96
2072639--2072688	3	17.0	3	95	4	93	34	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2073415--2073456	13	3.2	13	96	0	75	0	28	61	9	1.27
2074013--2074048	19	1.9	19	94	5	65	22	0	5	72	1.05
2074786--2074843	24	2.4	23	83	8	71	34	1	1	62	1.16
2079100--2079125	2	13.0	2	100	0	52	50	0	0	50	1.00
2079419--2079469	18	2.9	17	91	8	84	86	0	13	0	0.58
2079423--2079469	11	4.3	11	83	8	60	87	0	12	0	0.55
2079423--2079469	6	7.3	7	75	24	50	87	0	12	0	0.55
2081699--2082129	83	5.2	83	95	0	747	27	13	21	37	1.91
2083449--2083503	22	2.5	22	84	0	74	36	12	14	36	1.84
2084065--2084269	91	2.3	91	94	3	360	37	20	17	24	1.94
2084513--2085280	76	10.1	76	94	1	1288	22	20	20	35	1.96
2085429--2085468	3	14.0	3	89	10	66	35	0	0	65	0.93
2085429--2085473	14	3.2	14	90	6	65	37	0	0	62	0.96
2085429--2085473	17	2.6	17	83	13	65	37	0	0	62	0.96
2085429--2085468	20	2.0	20	100	0	80	35	0	0	65	0.93
2086191--2086219	13	2.2	13	100	0	58	0	31	62	6	1.22
2086779--2086810	17	1.9	17	93	6	57	25	0	6	68	1.12
2087010--2087089	40	2.0	39	92	7	135	46	8	12	32	1.72
2087390--2087421	14	2.3	14	100	0	64	50	18	0	31	1.48
2087597--2087897	55	5.5	53	82	5	246	32	10	15	41	1.81
2087969--2088064	42	2.3	41	83	7	122	22	20	21	34	1.97
2087925--2088467	275	2.0	274	89	2	831	27	14	20	36	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2089007--2089040	17	2.0	17	100	0	68	47	5	23	23	1.73
2089017--2089505	139	3.5	138	88	3	714	34	17	22	25	1.96
2096067--2096099	17	1.9	17	93	0	57	30	36	12	21	1.90
2099811--2099865	24	2.3	24	80	0	65	10	18	32	38	1.85
2115333--2115403	34	2.1	34	97	0	133	19	15	11	53	1.72
2119172--2119228	26	2.2	26	100	0	114	33	28	10	28	1.90
2123384--2123424	19	2.2	19	90	0	64	46	0	9	43	1.36
2123515--2123547	14	2.4	14	94	0	57	27	6	9	57	1.53
2124308--2124354	18	2.7	18	84	12	55	38	0	0	61	0.96
2124436--2124483	19	2.5	20	80	6	55	45	4	8	41	1.53

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17