genome.fa.s8654.2.7.7.80.10.50.1000.10.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: VEPZ01008654.1 Hibiscus syriacus cultivar Beakdansim tig00111648_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3533819

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  10  of  18  ( 2052 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)
1801762--1801802	11	4.0	10	87	12	57	78	0	0	21	0.76
1801765--1801802	16	2.4	16	91	4	60	78	0	0	21	0.74
1801761--1801833	3	24.7	3	77	15	73	68	1	1	28	1.06
1802060--1802420	130	2.8	131	83	3	399	31	16	21	30	1.95
1803721--1803745	13	1.9	13	100	0	50	12	0	0	88	0.53
1803741--1803777	19	1.9	20	88	5	58	2	18	0	78	0.87
1803719--1803801	7	11.0	7	74	21	53	4	15	0	79	0.89
1803741--1803811	24	2.9	24	78	17	83	2	21	0	76	0.92
1803727--1803800	32	2.4	30	78	12	78	4	16	0	79	0.87
1808073--1808111	9	4.3	9	83	0	51	10	12	0	76	1.01
1821295--1821340	20	2.3	20	85	3	67	54	8	17	19	1.68
1827043--1827077	11	3.2	11	87	0	52	68	0	0	31	0.90
1831404--1831446	20	2.3	18	84	8	50	11	18	0	69	1.17
1833584--1833627	2	22.0	2	100	0	88	50	0	0	50	1.00
1839476--1839508	15	2.2	15	94	0	57	78	0	21	0	0.75
1844278--1844332	22	2.5	22	93	0	101	34	10	14	40	1.81
1845008--1845507	76	6.6	76	95	1	898	25	19	21	33	1.97
1845441--1845539	45	2.2	45	92	0	162	22	20	20	37	1.95
1845694--1845733	3	13.3	3	94	0	71	30	0	0	70	0.88
1847057--1847105	22	2.2	22	89	7	73	26	4	2	67	1.19
1847036--1847105	11	6.3	10	79	17	59	27	4	1	67	1.18
1849479--1849508	2	15.0	2	100	0	60	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)
1849754--1849817	29	2.2	30	88	2	94	45	0	4	50	1.22
1850138--1850202	33	2.0	33	96	0	121	21	44	3	30	1.67
1850136--1850233	33	3.1	32	84	7	101	18	48	2	30	1.59
1850851--1850912	32	1.9	32	86	0	88	30	30	0	38	1.58
1852993--1853148	75	2.1	74	88	5	226	39	4	4	51	1.43
1854576--1854644	19	3.7	19	96	1	122	52	4	24	18	1.64
1856457--1856499	21	2.2	19	83	8	50	46	2	23	27	1.64
1859693--1859879	31	6.0	31	91	3	288	19	18	22	39	1.92
1866020--1866105	41	2.1	41	97	0	163	38	13	23	24	1.91
1876806--1876839	3	10.7	3	87	12	50	0	32	0	67	0.91
1876806--1876839	13	2.6	13	100	0	68	0	32	0	67	0.91
1877295--1877337	21	2.0	21	86	0	59	30	27	25	16	1.97
1877891--1878104	103	2.1	103	94	0	383	24	12	24	38	1.90
1878121--1878183	23	2.7	23	85	4	83	20	26	25	26	1.99
1884231--1884270	20	2.0	20	90	0	62	32	30	20	17	1.95
1884233--1884276	20	2.2	20	83	0	52	36	29	15	18	1.92
1884298--1884335	20	1.9	20	88	0	58	23	34	31	10	1.89
1884340--1884373	17	2.1	16	88	5	50	73	0	26	0	0.83
1884824--1885041	103	2.1	103	95	0	391	24	12	24	38	1.91
1885058--1885120	23	2.7	23	82	4	83	20	22	26	30	1.98
1888466--1888522	15	3.9	15	88	2	89	36	7	21	35	1.80
1888460--1888531	30	2.4	30	97	2	137	41	5	20	31	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1888540--1888574	14	2.5	14	90	0	52	34	14	20	31	1.92
1888807--1888849	21	2.0	22	86	9	61	44	0	2	53	1.13
1888808--1888866	23	2.6	21	81	10	55	47	0	1	50	1.11
1888844--1889002	20	7.8	20	67	21	64	48	1	0	49	1.13
1888853--1888915	27	2.3	26	84	10	81	44	1	0	53	1.10
1888946--1889013	29	2.2	31	85	12	88	52	0	1	45	1.09
1889191--1889307	42	2.8	42	93	0	198	46	18	17	17	1.85
1892004--1892043	20	2.0	21	85	5	55	30	15	22	32	1.94
1892154--1892194	20	2.0	21	90	4	66	36	31	14	17	1.90
1894584--1894624	17	2.4	17	95	0	73	31	14	4	48	1.65
1895939--1896251	158	2.0	159	90	1	493	30	21	16	32	1.95
1896832--1896863	2	16.0	2	100	0	64	50	0	0	50	1.00
1900190--1900231	21	2.0	20	86	4	57	73	0	0	26	0.83
1907428--1907542	52	2.2	52	96	0	212	25	17	12	45	1.83
1913371--1913692	110	3.0	109	81	9	392	30	18	11	40	1.85
1913349--1913727	110	3.6	105	79	10	389	31	17	12	39	1.86
1914755--1915016	91	3.0	89	86	3	343	38	14	20	26	1.91
1915404--1915448	17	2.6	18	82	10	58	28	2	0	68	1.01
1915407--1915451	23	2.0	23	87	12	67	28	2	0	68	1.01
1915407--1915451	20	2.2	21	88	4	65	28	2	0	68	1.01
1919631--1919694	29	2.2	28	81	8	76	48	6	12	32	1.66
1919883--1919960	30	2.5	32	87	6	115	57	6	6	29	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1919903--1919967	30	2.3	28	84	7	78	58	7	4	29	1.46
1926437--1926615	93	1.9	93	90	0	286	30	17	20	31	1.96
1926860--1927304	175	2.5	178	89	4	666	38	11	16	33	1.85
1927151--1927764	75	8.2	74	80	8	520	39	12	16	31	1.86
1927226--1927802	38	15.5	37	72	7	389	39	13	17	30	1.88
1927226--1927813	112	5.3	111	79	7	593	38	13	17	30	1.88
1939337--1939389	28	1.9	27	84	3	70	32	3	11	52	1.55
1942522--1942705	56	3.3	55	83	3	224	39	13	17	29	1.88
1944808--1944847	20	2.0	20	100	0	80	35	25	20	20	1.96
1944885--1944910	3	8.7	3	100	0	52	34	0	0	65	0.93
1953175--1953210	17	2.1	17	100	0	72	41	22	0	36	1.54
1955960--1956050	39	2.4	35	74	18	85	78	2	7	12	1.05
1955979--1956051	17	4.2	16	76	13	51	78	2	6	12	1.06
1955961--1956050	11	8.3	11	65	20	55	78	2	7	11	1.03
1956098--1956206	39	2.9	37	75	11	91	65	4	3	26	1.29
1956126--1956206	37	2.2	36	81	14	96	61	4	2	30	1.30
1956114--1956206	35	2.5	38	85	11	115	64	4	3	27	1.28
1956221--1956305	12	7.2	12	74	13	70	70	0	5	23	1.09
1956263--1956305	11	3.5	11	84	15	50	74	0	2	23	0.93
1956263--1956322	20	3.0	20	80	7	59	75	1	3	20	1.04
1958957--1958996	6	6.5	6	86	13	55	2	15	0	82	0.77
1967035--1967110	33	2.3	33	93	4	127	19	13	22	44	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1972774--1972821	14	3.4	14	80	13	53	22	4	0	72	1.01
1973493--1973530	17	2.2	18	85	4	51	23	0	2	73	0.95
1973565--1973616	14	3.5	14	80	14	59	28	3	0	67	1.08
1979034--1979068	11	3.1	11	88	8	52	22	0	2	74	0.95
1979100--1979142	7	5.7	7	79	15	50	30	2	0	67	1.03
1979100--1979142	15	2.8	15	85	3	59	30	2	0	67	1.03
1983652--1983791	10	14.0	10	82	13	114	88	0	5	5	0.63
1983660--1983800	8	16.8	8	81	11	122	87	0	4	7	0.65
1983660--1983781	1	122.0	1	81	0	145	90	0	2	6	0.51
1985311--1985825	139	3.7	139	87	1	712	36	17	19	26	1.94
1985617--1985661	23	2.0	22	83	12	56	44	6	28	20	1.76
1985311--1985825	278	1.9	277	89	2	800	36	17	19	26	1.94
1985727--1985998	115	2.3	117	89	2	406	41	15	17	25	1.89
1985900--1986073	76	2.2	78	85	5	237	38	14	17	29	1.90
1987800--1987922	50	2.5	49	80	12	119	24	8	3	63	1.39
2004707--2005080	130	2.9	131	84	0	446	40	16	8	34	1.78
2008765--2008795	2	15.5	2	100	0	62	51	48	0	0	1.00
2011166--2011382	48	4.5	48	79	8	255	34	16	22	27	1.95
2011453--2011575	42	3.0	41	78	7	133	29	21	22	26	1.99
2011386--2011955	230	2.5	230	88	4	808	35	16	16	32	1.91
2018590--2018643	23	2.5	22	79	11	58	24	24	27	24	2.00
2018600--2018653	23	2.4	22	84	9	72	24	20	33	22	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2024592--2024635	23	2.0	23	86	4	63	40	2	6	50	1.42
2031696--2031767	8	9.1	8	75	13	51	4	18	1	76	1.02
2031691--2031762	18	4.2	19	71	18	59	4	18	1	76	1.02
2031701--2031767	15	4.3	15	82	14	73	4	17	1	76	1.04
2031690--2031769	33	2.4	32	85	6	99	5	17	2	75	1.10
2032738--2032786	21	2.3	21	92	0	80	28	18	10	42	1.83
2035063--2035123	29	2.1	30	84	3	79	34	19	4	40	1.73
2045925--2045980	25	2.2	25	90	0	85	14	19	30	35	1.91
2046037--2046077	21	2.0	21	90	9	66	78	0	4	17	0.93
2046038--2046080	18	2.4	18	78	21	54	76	0	4	18	0.95

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18