genome.fa.s3805.2.7.7.80.10.50.1000.9.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: VEPZ01003805.1 Hibiscus syriacus cultivar Beakdansim tig00008145_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2300233

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

This is table  9  of  11  ( 1239 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)
1838640--1838859	77	2.9	74	82	6	210	34	16	9	39	1.82
1838705--1839312	179	3.4	179	92	0	957	34	16	11	38	1.84
1839573--1839751	93	1.9	93	87	2	261	28	25	18	27	1.98
1839977--1840103	36	3.5	37	75	7	116	30	19	11	38	1.87
1840051--1840619	179	3.2	178	90	2	858	33	15	11	39	1.84
1840220--1840364	76	1.9	75	84	4	193	31	15	12	40	1.85
1840895--1841063	93	1.8	93	86	0	248	30	23	17	27	1.97
1844405--1844439	16	2.2	16	100	0	70	42	11	0	45	1.40
1846314--1846354	17	2.4	17	91	0	64	43	7	2	46	1.44
1846315--1846359	17	2.6	17	89	0	63	42	8	4	44	1.56
1852425--1852458	17	2.1	17	88	5	52	32	14	8	44	1.76
1853033--1853091	24	2.5	24	80	2	66	28	23	27	20	1.99
1853061--1853183	23	5.3	23	80	4	97	33	22	25	18	1.97
1857054--1857089	17	2.1	17	89	0	54	61	16	13	8	1.56
1857457--1857614	44	3.6	44	85	1	210	36	22	12	29	1.90
1857979--1858029	3	17.3	3	87	4	77	33	3	0	62	1.13
1859853--1859909	30	1.9	30	82	7	71	24	21	3	50	1.64
1860904--1860931	5	5.6	5	100	0	56	60	0	39	0	0.97
1861053--1861147	7	13.6	7	75	8	77	20	0	34	45	1.51
1861040--1861119	42	1.9	42	89	0	124	23	0	31	45	1.54
1863102--1863173	12	6.2	12	83	4	69	31	20	22	25	1.98
1863113--1863173	23	2.6	23	92	2	95	32	21	22	22	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1863267--1863349	31	2.6	32	88	7	125	21	8	24	45	1.79
1869240--1869337	29	3.4	29	74	5	90	47	4	12	35	1.60
1869200--1869309	29	3.7	28	72	13	78	40	4	17	38	1.70
1869203--1869355	58	2.6	58	79	9	148	44	4	15	35	1.67
1869654--1870255	182	3.3	182	90	1	929	43	14	16	26	1.86
1872920--1873004	27	3.2	27	94	1	145	62	0	29	8	1.24
1874579--1874756	66	2.7	66	90	1	286	33	5	22	38	1.78
1875075--1875517	201	2.2	200	87	1	636	40	13	14	31	1.85
1875405--1875662	129	2.0	129	81	3	304	42	15	15	25	1.87
1875535--1876089	199	2.8	197	84	4	688	41	14	16	27	1.87
1879558--1879594	20	2.0	20	89	10	60	54	5	10	29	1.57
1879413--1879872	199	2.3	199	85	3	642	38	12	15	33	1.85
1884132--1884625	198	2.5	199	84	3	615	40	15	14	29	1.87
1884730--1884793	23	2.8	23	92	0	110	37	20	7	34	1.81
1888282--1888355	37	2.0	36	85	12	98	43	1	4	51	1.29
1888590--1888645	15	3.0	20	70	29	59	33	0	16	50	1.45
1888590--1888664	36	2.1	36	82	9	91	37	1	14	46	1.53
1888726--1888762	2	18.5	2	100	0	74	48	0	0	51	1.00
1890123--1890220	39	2.5	39	84	0	124	29	21	25	23	1.99
1892165--1892218	18	3.0	18	91	0	90	18	25	33	22	1.97
1899874--1899916	17	2.4	18	84	7	61	37	0	0	62	0.95
1900832--1900888	20	2.8	20	78	7	60	52	10	1	35	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1901188--1901251	31	2.1	29	88	5	92	28	7	9	54	1.60
1904570--1904685	27	4.4	27	85	3	157	50	14	12	22	1.75
1909715--1909847	59	2.3	59	81	6	153	33	12	14	40	1.82
1911539--1911589	19	2.6	20	84	3	68	43	21	17	17	1.88
1911539--1911754	20	10.6	20	79	8	143	42	17	21	18	1.89
1911741--1911784	20	2.2	20	91	0	70	54	15	18	11	1.70
1911859--1911916	6	10.0	6	98	1	102	31	51	17	0	1.45
1912607--1912699	6	15.5	6	100	0	186	0	16	50	33	1.45
1912789--1912919	20	6.4	20	83	5	154	22	24	16	36	1.94
1912789--1912919	40	3.2	40	85	6	190	22	24	16	36	1.94
1912800--1912940	43	3.3	43	85	5	207	21	24	17	36	1.94
1912954--1913007	20	2.7	20	91	0	81	11	16	18	53	1.72
1920283--1920328	24	1.9	24	86	8	67	17	10	15	56	1.67
1922065--1922137	33	2.2	33	85	4	103	17	9	30	42	1.81
1923048--1923790	5	149.6	5	97	2	1403	39	20	0	39	1.52
1928659--1928692	16	2.2	15	89	5	50	44	26	5	23	1.76
1931936--1931999	24	2.8	23	80	17	80	20	29	20	29	1.97
1940505--1940540	2	18.5	2	94	5	65	50	0	0	50	1.00
1940786--1940823	20	1.9	20	94	0	67	26	28	21	23	1.99
1944345--1944733	196	2.0	196	98	0	760	37	13	16	33	1.88
1946908--1947005	45	2.2	44	85	8	128	28	21	21	28	1.99
1949067--1949117	20	2.5	20	96	0	93	25	29	19	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1949122--1949268	64	2.3	62	79	6	163	31	20	17	30	1.96
1956540--1956579	15	2.7	15	96	3	73	10	5	22	62	1.46
1957298--1957367	18	3.9	18	96	0	131	27	28	17	27	1.97
1958613--1958644	16	2.0	16	100	0	64	43	0	6	50	1.27
1966080--1966119	21	2.0	20	90	5	62	30	30	10	30	1.90
1979073--1979176	20	4.9	20	82	8	102	24	35	25	15	1.94
1981740--1981781	22	2.0	22	85	4	59	21	33	23	21	1.97
1993278--1993330	19	2.7	19	82	2	61	39	11	16	32	1.85
2004859--2004984	47	2.8	45	84	5	155	30	22	7	40	1.80
2005089--2005210	40	3.0	40	100	0	244	32	27	17	22	1.96
2011844--2011969	47	2.8	45	85	5	164	30	23	7	39	1.81
2012074--2012195	40	3.0	40	100	0	244	32	27	17	22	1.96
2018371--2018426	23	2.5	23	79	2	69	23	33	19	23	1.97
2020778--2020818	18	2.3	18	95	4	75	53	14	0	31	1.41
2024378--2024406	2	14.5	2	100	0	58	51	0	0	48	1.00
2031040--2031100	21	2.9	20	75	13	68	27	31	22	18	1.97
2036026--2036132	44	2.5	43	85	8	137	31	19	8	40	1.82
2040328--2040385	30	2.0	27	83	9	71	41	1	0	56	1.09
2040415--2040495	42	1.9	43	87	7	121	46	1	0	51	1.08
2040594--2040652	17	3.4	17	73	15	57	42	0	3	54	1.17
2040598--2040701	42	2.7	38	78	18	115	46	0	2	50	1.23
2040605--2040695	42	2.1	43	86	6	123	42	1	3	52	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2049799--2050203	77	5.3	76	78	8	333	40	8	14	35	1.78
2049796--2050200	154	2.6	154	81	8	450	40	8	14	35	1.78
2049909--2050244	154	2.2	154	80	7	371	41	8	14	35	1.77
2051969--2052003	14	2.5	14	90	0	52	51	0	2	45	1.16
2053158--2053208	23	2.2	24	89	3	77	47	3	1	47	1.32
2053155--2053213	24	2.4	25	86	8	77	44	5	1	49	1.34
2053342--2053368	14	1.9	14	100	0	54	22	44	11	22	1.84
2054924--2054971	23	2.1	23	88	0	69	35	12	18	33	1.89
2055728--2055790	23	2.7	23	92	0	99	38	20	4	36	1.74
2056190--2056276	39	2.2	39	95	0	156	17	13	20	48	1.81
2056534--2056570	18	2.1	18	89	0	56	51	10	5	32	1.60
2056955--2057005	25	2.0	25	92	0	84	39	19	7	33	1.81
2057190--2057241	23	2.3	22	90	6	77	44	19	1	34	1.62
2057200--2057262	23	2.7	23	90	0	90	38	19	6	36	1.77
2057549--2057614	25	2.6	25	80	0	87	42	13	9	34	1.76
2058473--2059544	183	5.9	183	97	0	1970	33	16	14	35	1.89
2058473--2059544	364	2.9	366	96	0	1970	33	16	14	35	1.89
2060961--2061002	3	14.0	3	84	0	57	26	33	2	38	1.69
2060961--2061014	12	4.2	12	82	13	54	24	33	5	37	1.79
2062785--2063339	197	2.8	199	94	3	984	32	16	14	36	1.90
2062785--2063345	195	2.9	197	94	3	965	32	16	15	36	1.90
2063155--2063520	176	2.1	178	91	6	602	31	17	15	35	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2063694--2063740	17	2.6	17	93	6	76	57	10	0	31	1.33
2065496--2065561	33	2.0	33	87	0	96	24	48	0	27	1.51
2065595--2065659	21	3.1	21	80	6	69	15	29	15	40	1.88
2067862--2067908	20	2.4	19	80	19	69	21	17	10	51	1.75
2068030--2068074	19	2.3	19	85	14	65	17	17	11	53	1.72
2068031--2068089	20	3.0	19	80	14	66	16	15	15	52	1.75
2073367--2073499	40	3.3	39	70	15	119	48	8	1	41	1.42
2074832--2074864	10	3.3	10	100	0	66	9	0	0	90	0.44
2077126--2077171	22	2.0	23	84	12	60	56	13	13	17	1.67
2077360--2077588	77	3.0	77	83	1	262	36	10	18	34	1.85

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