genome.fa.s8504.2.7.7.80.10.50.1000.9.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: VEPZ01008504.1 Hibiscus syriacus cultivar Beakdansim tig00111356_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2056749

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

This is table  9  of  10  ( 1190 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)
1746727--1746769	3	14.3	3	100	0	86	65	0	0	34	0.93
1746889--1747379	76	6.5	76	95	0	847	34	21	19	24	1.97
1748239--1748315	22	3.5	22	92	0	127	40	18	9	32	1.82
1751008--1751227	114	1.9	114	92	0	368	30	21	15	33	1.94
1756172--1756224	18	3.1	18	73	21	51	64	0	3	32	1.12
1756952--1757022	37	1.9	37	83	11	92	70	1	2	25	1.09
1758315--1758358	3	14.3	3	95	4	79	63	0	0	36	0.95
1759309--1759336	13	2.2	13	100	0	56	64	28	0	7	1.20
1763396--1763532	33	4.0	33	83	6	157	35	24	15	24	1.94
1763375--1763493	33	3.5	33	87	5	139	37	23	15	23	1.93
1768175--1768265	33	2.7	33	94	1	155	36	24	17	21	1.95
1768154--1768272	33	3.5	33	87	5	139	36	24	15	22	1.94
1768992--1769088	3	31.7	3	84	8	124	36	2	0	61	1.07
1771093--1771152	20	3.1	20	78	19	65	26	0	0	73	0.84
1771091--1771147	23	2.5	24	80	8	73	28	0	0	71	0.86
1771091--1771152	13	4.9	13	77	14	60	27	0	0	72	0.85
1778167--1778507	114	3.0	114	94	0	574	33	15	20	31	1.94
1780626--1780725	50	2.0	50	82	3	121	39	14	18	29	1.89
1781067--1781120	21	2.5	22	84	3	74	33	12	16	37	1.87
1781537--1782410	113	7.7	113	96	1	1407	37	13	20	28	1.90
1782658--1782750	3	30.3	3	81	8	98	38	2	0	59	1.10
1782663--1782747	19	4.8	19	80	12	92	38	2	0	58	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1788402--1788562	60	2.7	60	83	5	204	33	27	22	16	1.95
1788402--1788597	60	3.3	57	81	8	189	32	26	23	17	1.97
1790007--1790099	40	2.3	40	92	1	152	31	24	21	22	1.98
1791178--1791252	29	2.6	29	78	0	87	42	22	2	32	1.68
1798449--1798545	21	4.7	21	78	14	112	44	22	9	23	1.82
1803523--1803560	20	1.9	20	84	10	51	63	2	13	21	1.42
1804615--1804659	19	2.3	20	85	7	67	66	0	2	31	1.04
1804865--1804926	32	1.9	33	93	3	108	48	8	1	41	1.42
1812976--1813034	24	2.5	24	94	0	100	18	22	32	27	1.97
1818058--1818099	21	2.0	21	90	0	66	9	14	38	38	1.78
1818312--1818340	14	2.0	15	93	6	51	41	6	10	41	1.66
1818264--1818501	38	6.4	35	71	19	103	44	7	4	43	1.52
1818299--1818508	76	2.8	74	81	12	239	43	7	3	45	1.49
1818398--1818510	39	2.8	39	81	6	138	46	5	2	45	1.39
1818423--1818461	14	2.6	15	80	12	53	48	2	0	48	1.15
1820261--1820318	16	3.4	17	83	7	73	72	6	1	18	1.16
1820307--1820563	17	15.4	16	65	19	89	70	2	5	20	1.20
1820313--1820468	17	8.8	17	69	13	91	70	3	3	22	1.18
1820297--1820442	53	2.7	51	74	14	134	71	3	4	20	1.19
1820356--1820387	6	5.5	6	96	3	57	68	0	0	31	0.90
1820415--1820562	46	3.2	45	72	15	113	72	2	6	18	1.18
1820378--1820493	36	3.3	35	72	17	96	70	2	6	19	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1823475--1823605	53	2.5	52	76	5	145	29	8	11	51	1.67
1824321--1824731	194	2.1	193	82	4	488	36	12	11	39	1.80
1825319--1825367	21	2.3	21	89	0	80	26	14	22	36	1.92
1825944--1825974	14	2.1	15	94	5	55	19	9	0	70	1.14
1829591--1829642	27	2.0	26	88	3	77	63	3	11	21	1.43
1836696--1836725	12	2.4	13	94	5	53	80	0	0	20	0.72
1836822--1836909	16	5.3	15	71	16	50	73	0	7	18	1.06
1836836--1836890	25	2.2	25	83	6	67	74	0	3	21	0.97
1836835--1836965	33	3.9	33	77	6	115	73	0	8	17	1.12
1836847--1836893	25	1.9	24	91	4	76	72	0	6	21	1.07
1838131--1838163	11	3.3	10	91	8	50	60	3	0	36	1.12
1838130--1838166	13	2.9	14	88	11	53	59	5	0	35	1.20
1842646--1842684	20	2.0	20	85	10	53	58	0	2	38	1.12
1848026--1848071	20	2.3	19	85	14	58	26	15	8	50	1.73
1850527--1850561	2	17.5	2	100	0	70	48	0	0	51	1.00
1852816--1852930	60	1.9	60	85	7	162	37	5	23	33	1.77
1853882--1853931	22	2.3	22	79	6	57	48	2	2	48	1.24
1854659--1854702	21	2.0	22	82	4	54	52	4	4	38	1.42
1855304--1855353	23	2.2	22	89	3	73	26	6	0	68	1.13
1855496--1855543	22	2.2	20	82	10	51	37	6	4	52	1.46
1855943--1855972	10	3.0	10	100	0	60	50	0	20	30	1.49
1861592--1861801	30	7.1	29	82	5	231	25	21	19	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1861592--1861787	60	3.3	59	85	3	259	26	20	20	32	1.97
1861592--1861787	90	2.2	89	85	4	279	26	20	20	32	1.97
1865494--1865590	30	3.2	30	92	0	158	27	26	17	27	1.98
1865494--1865603	30	3.7	30	91	0	157	27	25	18	29	1.98
1865615--1865748	49	2.8	48	88	4	189	25	13	19	41	1.88
1869101--1869141	17	2.4	17	95	0	73	26	24	24	24	2.00
1869751--1870091	30	11.4	30	85	1	423	24	24	18	31	1.97
1871483--1871520	19	2.0	20	94	5	69	42	0	15	42	1.47
1876013--1876150	68	2.0	68	95	0	249	43	10	13	31	1.79
1876772--1876836	3	20.7	3	87	9	94	32	1	0	66	1.01
1878296--1878385	29	3.1	29	75	0	81	12	15	11	61	1.57
1882434--1882461	11	2.5	11	100	0	56	89	0	10	0	0.49
1882468--1882508	11	3.6	11	87	6	55	70	9	14	4	1.30
1883656--1883773	4	30.2	4	88	5	179	50	21	0	27	1.48
1884115--1884211	35	2.7	36	87	1	133	32	18	12	36	1.88
1884178--1884485	105	2.9	104	83	2	368	31	16	12	40	1.85
1884642--1884675	14	2.3	15	90	5	52	8	11	20	58	1.59
1884683--1884829	61	2.4	62	89	2	226	29	13	14	42	1.84
1884801--1884868	28	2.4	29	90	4	104	33	8	14	42	1.77
1884657--1884944	151	1.9	154	86	4	413	29	13	13	43	1.82
1884738--1884932	89	2.2	87	81	9	230	32	12	12	42	1.80
1884817--1884952	64	2.1	66	84	2	186	28	13	12	45	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1884827--1885011	66	2.9	64	78	6	187	33	13	11	41	1.80
1885152--1885233	32	2.6	32	79	11	96	25	14	12	47	1.79
1885279--1885374	35	2.7	35	76	13	90	29	17	13	39	1.88
1885637--1885690	28	1.9	28	84	0	72	22	18	16	42	1.89
1885770--1885992	43	5.2	44	72	10	160	25	30	19	25	1.98
1886156--1886212	3	18.7	3	85	10	80	31	1	0	66	1.02
1887673--1887762	29	3.1	29	75	0	81	12	15	11	61	1.57
1888732--1888886	77	2.0	79	97	2	296	38	9	9	41	1.71
1890459--1890539	16	5.1	16	66	18	53	48	2	0	49	1.14
1890453--1890577	59	2.2	57	85	5	162	46	4	0	48	1.29
1893004--1893072	30	2.3	30	84	0	93	36	8	8	46	1.66
1893417--1893541	67	1.9	65	80	9	146	39	7	14	39	1.74
1893540--1893752	94	2.3	94	92	0	363	35	8	16	39	1.79
1893625--1893681	26	2.1	27	87	3	80	33	8	10	47	1.69
1893620--1893919	166	1.8	167	93	0	521	35	8	14	41	1.76
1896015--1896074	5	12.0	5	96	0	111	21	0	38	40	1.54
1897662--1897698	2	18.5	2	88	0	56	45	0	54	0	1.00
1900799--1900859	31	1.9	32	87	9	90	44	4	4	45	1.46
1900799--1900884	31	2.8	30	81	11	86	41	4	4	48	1.44
1901093--1901250	21	7.8	20	72	7	86	38	25	17	18	1.92
1901217--1901371	40	3.8	40	82	4	186	37	26	18	18	1.93
1901217--1901370	20	7.7	20	80	7	168	37	26	18	18	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1901517--1901571	22	2.5	22	78	0	65	23	38	16	21	1.93
1901752--1901821	33	2.1	33	91	0	113	10	22	18	48	1.78
1901900--1901977	41	1.9	41	97	0	147	44	16	25	12	1.83
1901901--1901976	21	3.7	21	83	3	109	46	17	25	11	1.82
1901961--1902017	14	3.7	14	70	20	51	43	22	22	10	1.84
1901953--1902033	33	2.5	33	93	0	135	46	22	20	9	1.80
1902029--1902145	14	7.1	18	68	24	87	11	23	20	45	1.83
1902034--1902147	33	3.5	33	96	1	212	10	22	20	46	1.81
1903815--1904375	93	6.1	93	98	1	1083	21	12	19	45	1.83
1903815--1904375	185	3.0	186	98	1	1083	21	12	19	45	1.83

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