genome.fa.s8750.2.7.7.80.10.50.1000.9.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: VEPZ01008750.1 Hibiscus syriacus cultivar Beakdansim tig00111841_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3719443

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

This is table  9  of  18  ( 2144 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)
1720028--1720077	24	2.1	24	85	7	66	24	2	14	60	1.45
1724934--1725782	421	2.0	421	99	0	1671	31	15	21	31	1.94
1727310--1727352	20	2.1	21	87	8	63	13	16	0	69	1.19
1730637--1730685	24	2.1	24	85	11	66	24	0	14	61	1.33
1732181--1732246	3	22.3	3	80	9	73	60	0	1	37	1.06
1732413--1732945	39	13.7	39	85	3	646	22	22	11	42	1.86
1732413--1732945	78	6.8	78	88	1	746	22	22	11	42	1.86
1732413--1732945	117	4.6	116	87	1	717	22	22	11	42	1.86
1732994--1733382	45	8.6	45	81	6	428	30	18	22	28	1.98
1732994--1733389	135	2.9	136	84	6	489	30	18	22	28	1.98
1734018--1734094	22	3.5	22	89	3	111	38	11	11	37	1.78
1734466--1734627	54	3.0	54	95	0	288	28	25	12	33	1.92
1735501--1735752	75	3.4	75	88	2	362	32	22	13	31	1.92
1736685--1736764	40	2.0	40	100	0	160	25	22	25	27	2.00
1740285--1740366	42	1.9	43	90	7	132	37	21	7	32	1.81
1740969--1741008	19	2.1	20	86	9	57	37	10	7	45	1.66
1742427--1742460	2	17.5	2	93	6	61	50	0	0	50	1.00
1742589--1742634	14	3.5	13	77	16	51	73	4	0	21	1.00
1742956--1743028	34	2.1	35	82	2	85	53	6	9	30	1.59
1744024--1744105	3	27.3	3	84	0	101	64	0	0	35	0.94
1746227--1746256	14	2.1	14	100	0	60	43	0	20	36	1.52
1749272--1749642	30	12.6	29	74	11	222	39	9	1	49	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1749272--1749599	61	5.6	59	72	12	214	38	9	1	51	1.42
1749272--1749601	30	11.2	29	75	12	237	38	9	1	51	1.42
1749353--1749522	91	1.9	91	81	4	209	39	9	0	50	1.39
1749573--1749630	29	2.0	30	86	3	82	39	13	1	44	1.54
1749647--1749810	29	5.7	29	76	11	133	53	1	5	39	1.35
1749771--1749835	24	2.6	26	73	14	64	53	0	9	36	1.33
1750759--1750808	21	2.4	21	75	0	55	8	18	26	48	1.75
1752863--1752897	18	1.9	18	88	0	52	37	11	8	42	1.72
1756607--1756643	14	2.6	14	95	0	65	40	24	16	18	1.90
1757029--1757208	65	2.8	64	77	9	188	30	17	22	30	1.97
1759613--1759689	23	3.4	23	75	7	86	22	27	24	25	2.00
1759631--1759704	21	3.4	21	76	7	85	21	24	25	28	1.99
1759611--1759729	44	2.7	44	93	1	193	24	23	26	26	2.00
1759611--1759710	21	4.6	21	74	7	83	23	24	25	28	2.00
1759611--1759749	44	3.2	44	89	4	165	25	21	25	27	1.99
1763557--1763596	21	1.9	21	85	10	55	35	10	2	52	1.48
1765540--1765747	65	3.2	64	76	14	176	27	17	23	31	1.97
1766151--1766379	57	4.0	56	85	4	280	35	28	19	16	1.94
1773192--1773237	19	2.3	20	78	10	51	71	2	10	15	1.23
1773852--1773896	18	2.5	18	85	0	63	64	13	8	13	1.49
1777201--1777260	31	1.9	31	89	0	93	41	3	10	45	1.54
1777702--1777763	18	3.2	20	78	19	62	61	0	1	37	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1777731--1777791	21	2.6	24	70	21	58	57	1	1	39	1.18
1777708--1777827	40	3.1	37	74	17	111	57	0	1	40	1.14
1777775--1777868	14	7.2	14	68	19	69	58	0	1	40	1.05
1777736--1777827	20	4.6	20	78	9	98	56	1	2	40	1.18
1777758--1777837	40	2.0	41	90	2	126	60	1	1	37	1.13
1777778--1777862	26	3.3	26	79	11	68	57	0	1	41	1.06
1777689--1777902	35	6.2	35	64	23	87	59	1	0	37	1.15
1777852--1777902	12	4.3	12	76	18	54	66	1	0	31	1.03
1778030--1778059	12	2.4	13	94	5	53	53	0	6	40	1.27
1781025--1781110	39	2.2	39	83	8	104	25	18	18	37	1.94
1787152--1787188	3	12.3	3	88	0	56	29	0	37	32	1.58
1788380--1788426	24	2.0	24	91	0	76	27	23	27	21	1.99
1788387--1788442	24	2.4	24	81	3	69	30	25	26	17	1.97
1789195--1789735	266	2.0	267	95	1	978	34	23	4	36	1.77
1794763--1794795	16	2.1	16	100	0	66	15	24	18	42	1.88
1795705--1795769	24	2.8	23	83	4	85	29	24	26	20	1.99
1798780--1798822	18	2.6	16	79	13	50	65	2	0	32	1.06
1811657--1811765	29	3.8	29	87	0	155	48	19	17	14	1.81
1812422--1812465	22	2.0	22	86	0	61	18	15	40	25	1.90
1818556--1818664	29	3.8	28	77	13	98	49	15	18	16	1.80
1818556--1818667	58	1.9	58	83	3	145	49	15	18	16	1.80
1821013--1821058	7	6.6	7	100	0	92	0	28	0	71	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1821376--1821419	21	2.1	21	86	0	61	25	22	13	38	1.91
1821418--1821464	20	2.3	20	96	0	85	36	27	17	19	1.93
1821461--1821503	20	2.2	20	95	0	77	46	25	11	16	1.80
1821682--1821724	20	2.2	20	95	0	77	46	25	11	16	1.80
1821879--1821926	22	2.2	22	88	0	69	22	41	14	20	1.89
1822293--1822332	20	2.0	20	90	0	62	12	17	22	47	1.81
1823887--1823936	21	2.4	21	82	0	55	18	14	36	32	1.90
1823953--1824002	21	2.4	21	80	6	57	20	10	40	30	1.85
1824245--1824357	42	2.7	42	85	0	136	22	33	20	23	1.97
1824287--1824357	21	3.4	21	84	0	97	21	38	21	19	1.94
1825701--1825849	64	2.3	64	91	0	235	30	2	16	51	1.56
1826162--1826197	18	2.0	18	100	0	72	16	0	27	55	1.42
1826612--1826699	40	2.2	40	81	6	97	35	13	22	28	1.92
1826621--1826772	20	7.6	20	80	2	117	32	13	24	29	1.94
1829687--1829718	16	2.0	17	88	11	50	28	6	0	65	1.16
1830474--1830919	229	1.9	231	99	0	878	19	11	22	46	1.82
1834013--1834078	19	3.4	19	89	4	105	19	18	39	22	1.92
1836752--1836816	24	3.0	21	70	22	53	27	20	23	29	1.98
1836719--1836816	45	2.2	44	85	8	128	27	20	23	28	1.99
1842572--1842759	65	2.9	65	79	7	172	31	15	21	30	1.95
1842615--1842778	65	2.5	63	83	7	197	30	14	23	31	1.94
1843972--1844041	25	3.0	25	72	19	78	48	7	17	27	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1844553--1844602	7	7.6	7	86	8	70	84	0	14	2	0.72
1844553--1844602	20	2.5	20	93	3	75	84	0	14	2	0.72
1844553--1844602	13	3.9	12	82	12	64	84	0	14	2	0.72
1844553--1844601	6	7.7	6	88	6	62	83	0	14	2	0.73
1856884--1856930	19	2.4	19	80	16	60	59	14	4	21	1.52
1867968--1868312	171	2.0	173	98	1	667	27	13	14	43	1.84
1868339--1868370	15	2.1	16	94	5	57	25	37	9	28	1.87
1868476--1868515	18	2.2	18	86	0	53	75	0	5	20	0.99
1868476--1868533	25	2.3	25	87	3	80	72	0	6	20	1.07
1868519--1868562	17	2.4	18	85	11	63	72	4	9	13	1.24
1870200--1870271	31	2.3	31	92	0	126	45	1	8	44	1.42
1870200--1870273	11	7.1	11	70	19	52	45	1	8	44	1.41
1871454--1871501	24	2.0	24	100	0	96	33	12	12	41	1.80
1871836--1871950	61	1.9	61	83	0	149	26	16	26	30	1.97
1872060--1872246	45	4.1	46	91	2	297	40	6	22	30	1.79
1872085--1872154	21	3.1	21	63	21	52	42	4	22	30	1.73
1872060--1872246	91	2.0	92	90	3	297	40	6	22	30	1.79
1872622--1872664	21	2.0	21	86	8	61	27	20	27	23	1.99
1877446--1877495	20	2.5	20	78	9	50	74	6	12	8	1.22
1879172--1879201	10	3.0	10	100	0	60	20	0	0	80	0.72
1883059--1883205	78	1.9	79	81	8	185	40	9	5	44	1.60
1886986--1887082	21	4.6	21	84	0	95	38	13	15	32	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1887499--1887541	3	14.3	3	95	0	77	32	2	0	65	1.06
1897925--1897963	21	1.9	21	89	5	62	25	15	23	35	1.94
1902882--1902951	21	3.3	21	75	0	59	40	11	18	30	1.86
1903009--1903049	21	2.0	21	90	9	66	51	29	9	9	1.67
1919954--1920011	29	1.9	31	86	6	84	18	13	6	60	1.55
1921899--1921961	10	6.2	10	78	10	58	79	0	19	1	0.82
1921913--1921968	7	7.6	7	86	6	67	82	0	16	1	0.76
1921904--1921968	23	2.8	23	90	6	96	81	0	16	1	0.77
1921905--1921965	30	2.0	32	90	6	99	80	0	18	1	0.80
1924157--1924215	2	29.5	2	96	0	109	52	0	0	47	1.00

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