genome.fa.s2.2.7.7.80.10.50.1000.8.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: VEPZ01000002.1 Hibiscus syriacus cultivar Beakdansim tig00000003_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2131600

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

This is table  8  of  10  ( 1119 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)
1729655--1729863	95	2.2	93	80	9	219	28	24	14	32	1.95
1734047--1734093	16	2.9	16	100	0	94	57	23	12	6	1.58
1734159--1734217	10	6.7	10	71	28	62	57	22	11	8	1.61
1734163--1734211	16	3.1	16	100	0	98	57	24	12	6	1.58
1734159--1734217	26	2.3	26	85	5	75	57	22	11	8	1.61
1734961--1735016	14	4.3	14	78	17	75	53	21	12	12	1.71
1734954--1735015	24	2.6	24	92	0	106	54	20	11	12	1.68
1736948--1736993	20	2.3	20	100	0	92	36	10	10	41	1.75
1747365--1747404	16	2.5	16	100	0	80	35	10	25	30	1.88
1749734--1749892	65	2.5	65	86	3	214	30	25	15	28	1.96
1755416--1755471	22	2.7	21	83	10	62	30	23	17	28	1.97
1758057--1758266	65	3.2	64	80	8	221	30	25	16	28	1.96
1758105--1758268	65	2.5	65	86	2	224	30	26	15	28	1.96
1760244--1760296	18	2.9	18	97	0	97	16	24	33	24	1.96
1764061--1764113	21	2.6	19	77	13	52	22	7	1	67	1.25
1766713--1766767	26	2.1	26	86	0	74	38	16	12	32	1.86
1772246--1772275	15	2.0	15	100	0	60	26	13	46	13	1.80
1781040--1781102	32	2.0	32	87	0	90	47	31	11	9	1.71
1781066--1781105	16	2.5	16	87	0	53	47	35	10	7	1.65
1781276--1781414	21	6.8	20	72	8	82	36	25	17	20	1.94
1781381--1781610	20	11.5	20	81	5	223	36	24	18	20	1.94
1782292--1782338	24	2.0	24	87	8	69	25	14	21	38	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1782513--1782537	13	1.9	13	100	0	50	76	0	24	0	0.80
1784817--1784995	33	5.2	33	85	10	252	46	18	21	13	1.83
1784831--1785013	19	10.4	19	78	18	218	46	18	20	14	1.83
1784955--1785032	14	4.8	15	71	22	52	43	19	24	12	1.86
1784817--1785013	71	2.8	72	93	5	336	46	18	21	13	1.83
1784831--1785035	52	3.9	52	83	9	267	46	18	21	14	1.84
1785042--1785157	53	2.2	53	96	1	216	14	23	18	43	1.86
1785060--1785157	19	5.4	19	84	13	143	15	21	17	45	1.84
1785255--1785312	14	4.4	13	77	10	55	50	20	0	29	1.49
1787254--1787346	33	2.8	33	95	0	168	48	22	19	9	1.78
1787217--1787351	19	7.6	19	75	16	128	46	24	18	10	1.80
1787273--1787329	14	3.7	14	72	20	51	47	24	19	8	1.77
1787347--1787475	19	7.3	19	73	17	116	9	17	27	45	1.78
1787347--1787438	33	2.8	33	91	3	141	8	18	27	45	1.78
1787523--1788170	93	7.1	93	97	2	1222	45	19	12	22	1.83
1787522--1788170	276	2.4	276	97	1	1223	45	19	12	22	1.83
1787523--1788170	184	3.5	186	97	2	1222	45	19	12	22	1.83
1789868--1789924	14	3.7	14	75	20	51	42	24	22	10	1.85
1789860--1789943	33	2.5	33	94	0	150	45	21	22	10	1.82
1789882--1789965	19	4.7	19	81	14	106	44	22	21	11	1.85
1789977--1790033	14	3.7	14	75	20	60	8	24	22	43	1.81
1789961--1790041	33	2.5	33	95	0	144	8	22	22	46	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1790018--1790093	21	3.7	21	80	3	100	13	23	17	46	1.83
1790017--1790094	41	1.9	41	94	0	138	14	24	16	44	1.84
1790017--1790084	20	3.4	20	80	6	75	14	23	14	47	1.82
1790173--1790243	33	2.2	33	92	0	115	47	18	22	11	1.80
1790425--1790478	22	2.5	22	81	0	72	20	16	38	24	1.92
1790626--1790776	20	7.7	20	79	7	184	21	19	25	33	1.96
1790628--1790815	40	4.8	40	81	4	188	19	18	25	36	1.94
1790763--1790816	20	2.7	19	82	5	63	12	18	24	44	1.85
1790626--1790815	60	3.2	59	77	5	206	19	18	25	36	1.95
1790802--1790884	21	4.0	21	73	6	78	25	16	24	33	1.96
1791065--1791097	2	16.5	2	100	0	66	48	0	0	51	1.00
1792972--1792997	2	13.0	2	100	0	52	50	0	0	50	1.00
1793476--1793525	23	2.2	23	96	0	91	24	38	26	12	1.90
1794209--1794250	3	13.3	3	85	9	57	30	7	0	61	1.22
1795705--1795796	30	3.0	30	74	14	91	25	17	19	38	1.93
1795705--1795793	31	2.9	30	75	15	85	24	17	19	38	1.93
1800755--1800848	31	3.0	32	78	6	102	25	15	22	36	1.94
1803336--1803370	18	1.9	18	100	0	70	25	34	22	17	1.96
1804108--1804138	2	15.5	2	100	0	62	51	0	0	48	1.00
1805091--1805132	19	2.2	19	83	8	50	23	38	26	11	1.90
1805146--1805357	29	7.4	29	77	12	179	34	4	18	41	1.70
1813558--1813608	19	2.6	19	93	3	84	39	31	11	17	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1813703--1813768	19	3.4	19	89	2	96	33	24	10	31	1.89
1813944--1813981	16	2.5	15	84	12	51	31	2	0	65	1.06
1814724--1814777	24	2.2	24	90	0	81	20	18	18	42	1.89
1817196--1817290	43	2.2	43	80	0	109	27	14	21	36	1.92
1817393--1817543	64	2.3	65	89	4	225	52	13	1	31	1.52
1820968--1821010	21	2.2	19	84	16	52	51	2	11	34	1.51
1824427--1824552	47	2.8	45	88	5	182	29	23	8	38	1.84
1830701--1830739	20	2.0	20	89	0	60	30	33	15	20	1.94
1830759--1830849	46	2.0	46	89	2	139	29	25	18	26	1.98
1831745--1831859	21	5.5	21	82	0	122	22	17	37	22	1.94
1831745--1831860	42	2.8	42	89	0	160	23	17	37	22	1.94
1832177--1832316	63	2.2	64	82	7	162	30	34	14	21	1.93
1834049--1834079	14	2.2	14	94	0	53	6	19	25	48	1.72
1834062--1834105	20	2.2	20	83	0	52	15	13	20	50	1.78
1834588--1834629	20	2.1	20	86	0	57	16	9	26	47	1.77
1834817--1834856	22	1.9	22	85	10	57	52	5	7	35	1.51
1838166--1838206	21	2.0	21	85	0	55	21	26	19	31	1.97
1841842--1841884	21	2.0	21	86	0	59	27	16	18	37	1.92
1843204--1843232	14	2.0	15	93	6	51	75	3	6	13	1.13
1851885--1851925	5	7.8	5	84	10	55	75	0	0	24	0.80
1851886--1851925	11	3.7	11	86	3	55	77	0	0	22	0.77
1851976--1852018	18	2.4	18	92	0	68	72	0	6	20	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1852611--1852781	64	2.7	64	95	1	308	54	12	0	32	1.38
1852730--1852893	76	2.2	75	86	3	222	57	10	2	29	1.45
1855646--1855705	28	2.1	28	96	0	111	31	6	40	21	1.79
1856382--1856435	22	2.4	23	81	9	76	53	0	1	44	1.11
1856382--1856431	21	2.3	22	86	3	66	54	0	2	44	1.11
1863260--1863334	37	2.0	37	82	10	91	49	2	1	46	1.24
1872374--1872623	124	2.0	124	100	0	500	48	11	4	35	1.60
1874977--1875027	22	2.4	22	93	3	86	49	13	9	27	1.74
1884290--1884357	31	2.2	32	79	12	79	39	14	7	38	1.74
1884298--1884356	29	2.0	31	86	6	86	40	16	5	37	1.71
1885048--1885112	27	2.4	28	77	15	73	66	3	18	12	1.37
1893132--1893156	2	12.5	2	100	0	50	0	0	48	52	1.00
1894932--1894997	23	2.9	23	83	0	69	28	24	19	27	1.99
1895625--1895678	25	2.2	25	100	0	108	33	18	0	48	1.49
1897847--1898205	36	9.6	36	70	10	181	35	18	10	35	1.85
1897956--1898208	37	6.8	37	67	18	139	35	19	9	35	1.85
1898344--1898672	36	9.4	36	76	9	295	25	22	13	38	1.90
1898274--1898529	99	2.5	100	80	10	272	26	19	13	40	1.89
1898520--1898581	21	3.2	21	67	21	53	27	20	11	40	1.87
1898434--1898647	73	3.0	73	85	7	271	24	21	13	40	1.89
1898443--1898651	109	1.9	108	90	2	330	24	22	11	41	1.87
1898622--1898803	66	2.7	67	80	4	181	26	23	12	38	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1899518--1899564	19	2.4	20	85	3	60	25	42	17	14	1.87
1899558--1899590	13	2.5	13	90	0	57	21	54	15	9	1.68
1899614--1899668	17	3.2	17	100	0	110	50	5	10	32	1.60
1906610--1906865	134	1.9	135	82	2	327	33	18	14	33	1.91
1907716--1907753	16	2.4	16	100	0	76	31	18	31	18	1.95
1908799--1908962	39	4.2	39	87	0	238	28	17	17	35	1.93
1909019--1909216	52	3.7	52	78	9	193	32	9	18	39	1.83
1908964--1909216	58	4.6	57	78	12	237	30	9	19	40	1.83
1909343--1909593	84	3.0	83	86	4	369	25	25	15	33	1.95
1909656--1909803	42	3.5	42	82	2	174	27	20	22	29	1.99

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