genome.fa.s6093.2.7.7.80.10.50.1000.9.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: VEPZ01006093.1 Hibiscus syriacus cultivar Beakdansim tig00014444_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3172561

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   

This is table  9  of  13  ( 1555 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)
1755621--1755780	65	2.5	66	86	5	211	31	23	18	26	1.97
1760667--1760712	22	2.1	22	87	0	65	36	6	15	41	1.73
1761394--1761451	17	3.4	17	80	0	62	41	8	13	36	1.76
1761399--1761468	34	2.0	36	86	5	99	44	10	10	35	1.72
1765915--1765996	29	2.8	29	94	1	137	32	14	9	42	1.79
1767285--1767314	15	2.0	15	93	0	51	56	23	0	20	1.42
1770683--1770764	29	2.8	29	94	1	137	32	14	9	42	1.79
1778278--1778308	2	15.5	2	100	0	62	48	0	0	51	1.00
1781089--1781177	32	2.8	32	91	0	142	32	16	16	33	1.92
1781711--1781762	22	2.4	22	100	0	104	46	3	21	28	1.69
1782376--1782425	20	2.5	20	80	6	57	44	4	16	36	1.66
1782590--1782683	48	2.0	48	89	0	143	34	11	13	40	1.81
1783938--1784304	66	5.9	66	77	12	355	37	14	15	32	1.88
1783954--1784304	125	2.9	121	84	3	440	37	14	15	31	1.88
1790961--1791274	66	4.9	66	83	6	374	35	13	17	33	1.88
1790990--1791274	125	2.2	130	85	4	391	35	13	17	32	1.90
1796376--1796431	20	2.8	20	83	2	60	37	10	3	48	1.56
1800806--1800854	20	2.5	20	93	0	80	53	22	6	18	1.66
1806684--1806724	16	2.3	19	76	20	52	39	7	0	53	1.29
1808768--1808850	25	3.1	25	74	8	67	73	3	2	20	1.10
1808829--1808866	16	2.6	16	88	12	55	78	0	0	21	0.74
1808811--1808864	20	2.6	22	77	16	62	74	1	1	22	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1809827--1809878	20	2.7	20	84	3	70	53	0	3	42	1.19
1811931--1811979	20	2.5	20	76	6	55	44	2	10	42	1.49
1818666--1818710	16	2.8	16	100	0	90	33	20	6	40	1.78
1819004--1819032	10	2.9	10	100	0	58	20	0	27	51	1.47
1824480--1824551	30	2.5	29	80	14	96	51	2	1	44	1.24
1824480--1824552	19	3.8	18	71	16	58	50	2	1	45	1.24
1828386--1828426	21	2.0	21	90	0	64	43	0	0	56	0.99
1828450--1828497	20	2.3	21	85	3	62	66	2	8	22	1.29
1830764--1830812	21	2.3	21	86	10	73	59	0	0	40	0.98
1830977--1831035	14	4.4	14	69	16	52	59	1	3	35	1.24
1831129--1831185	29	2.0	29	82	6	71	54	3	1	40	1.28
1831193--1831291	42	2.2	46	76	20	102	53	3	0	43	1.16
1831230--1831299	32	2.2	32	80	12	74	57	2	0	40	1.14
1831261--1831299	21	1.9	20	84	5	51	61	0	0	38	0.96
1833600--1833642	18	2.4	18	100	0	86	30	9	0	60	1.28
1838100--1838134	9	3.8	9	92	7	61	11	22	0	65	1.24
1840989--1841069	44	1.9	44	85	7	114	39	0	3	56	1.17
1842401--1842452	19	2.5	20	81	9	61	30	15	34	19	1.93
1842436--1842475	20	2.0	20	85	0	53	30	12	35	22	1.91
1843030--1843097	23	3.0	23	93	0	118	23	25	23	27	2.00
1845875--1845910	14	2.6	14	95	0	63	25	33	13	27	1.94
1847225--1847278	19	2.8	20	86	10	76	25	16	35	22	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1847172--1847330	73	2.2	73	87	2	221	30	17	25	27	1.97
1847695--1847961	54	4.9	54	85	0	363	29	17	19	32	1.95
1847690--1847991	162	1.9	161	84	2	408	30	17	19	32	1.95
1847695--1847991	108	2.8	108	83	2	274	30	17	19	31	1.95
1854071--1854112	19	2.2	19	83	8	50	26	14	35	23	1.93
1854071--1854125	22	2.8	18	81	13	56	27	16	30	25	1.96
1854015--1854199	95	2.0	93	83	5	237	32	17	22	27	1.96
1854560--1854836	54	5.1	54	90	0	419	27	18	20	34	1.95
1854557--1854900	108	3.2	108	83	2	388	28	17	20	33	1.96
1854557--1854900	162	2.1	162	81	0	418	28	17	20	33	1.96
1856281--1856321	21	2.0	20	90	9	66	48	4	17	29	1.67
1858254--1858304	20	2.5	20	93	0	84	43	17	23	15	1.88
1863532--1863611	21	3.8	21	72	18	67	18	18	27	35	1.95
1866503--1866541	20	2.0	20	89	0	60	48	0	2	48	1.15
1866821--1866850	15	2.1	14	93	6	51	53	0	0	46	1.00
1868681--1868714	18	1.9	18	88	5	52	14	23	32	29	1.94
1871767--1871880	60	1.9	60	83	0	147	39	8	10	41	1.71
1874117--1874223	34	3.1	33	78	14	85	34	0	3	61	1.14
1874150--1874228	34	2.4	34	85	8	101	37	0	1	60	1.05
1874367--1874420	17	3.2	17	72	0	54	31	0	3	64	1.11
1874844--1875081	128	1.9	128	96	0	440	31	20	24	23	1.98
1876477--1876576	24	4.2	24	69	5	76	46	16	14	24	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1877706--1877740	17	2.1	17	88	0	52	28	17	0	54	1.43
1879032--1879063	7	4.4	7	92	7	55	25	28	34	12	1.92
1879033--1879079	8	6.5	8	79	20	59	21	25	38	14	1.92
1879033--1879079	15	3.3	15	91	5	71	21	25	38	14	1.92
1879061--1879137	18	4.6	18	81	15	110	11	19	50	18	1.77
1879055--1879133	31	2.5	31	91	0	140	13	20	48	17	1.81
1879079--1879114	13	2.8	13	86	0	54	13	16	50	19	1.79
1879040--1879084	13	3.3	13	90	6	63	17	24	42	15	1.88
1882504--1882539	18	2.0	18	88	0	54	30	16	0	52	1.44
1883843--1883874	7	4.4	7	92	7	55	25	28	34	12	1.92
1883844--1883890	8	6.5	8	79	20	59	21	25	38	14	1.92
1883844--1883890	15	3.3	15	91	5	71	21	25	38	14	1.92
1883872--1883943	18	3.6	18	74	25	72	12	19	50	18	1.78
1883869--1883939	31	2.5	28	80	11	74	15	21	46	16	1.84
1883851--1883921	13	5.3	13	87	3	97	18	21	43	16	1.88
1885990--1886046	18	3.2	18	70	25	50	43	0	1	54	1.10
1888360--1888420	16	3.8	16	95	0	113	8	13	22	55	1.64
1888829--1889474	182	3.5	182	88	3	926	41	13	17	26	1.87
1891708--1891743	9	4.1	9	89	3	56	30	0	55	13	1.39
1891941--1892006	33	2.0	33	93	0	114	28	0	45	25	1.54
1892191--1892229	18	2.2	18	95	0	69	56	0	35	7	1.28
1893739--1893787	19	2.6	19	96	0	89	32	2	10	55	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1894236--1894631	201	2.0	201	90	1	632	35	17	14	32	1.91
1896368--1896422	24	2.3	25	78	9	60	30	5	16	47	1.69
1897170--1897213	20	2.2	20	83	0	52	43	4	15	36	1.68
1897082--1898480	199	7.0	198	87	5	1861	39	14	15	30	1.88
1899996--1900039	19	2.3	19	92	0	70	34	6	6	52	1.55
1902724--1903214	200	2.5	199	83	4	605	39	15	14	31	1.87
1903232--1903288	23	2.4	23	72	13	62	35	17	10	36	1.84
1904390--1904446	23	2.5	23	82	0	78	29	24	22	22	1.99
1904540--1904593	16	3.5	16	85	9	60	42	20	9	27	1.82
1905078--1905121	19	2.3	19	96	0	79	34	22	11	31	1.90
1910526--1910646	2	62.5	2	93	6	214	51	0	0	48	1.00
1910817--1910894	23	3.4	23	87	0	111	39	24	19	16	1.91
1910821--1910916	23	4.2	23	82	1	86	38	21	20	18	1.93
1915153--1915217	21	3.1	21	78	8	62	38	16	20	24	1.93
1917923--1917959	15	2.5	15	90	0	56	13	16	62	8	1.54
1932143--1932260	54	2.2	55	90	1	184	33	22	16	26	1.96
1937581--1937618	19	2.0	19	100	0	76	42	10	10	36	1.74
1937936--1938014	30	2.6	29	80	11	88	51	0	1	46	1.08
1940926--1940980	23	2.5	22	77	13	60	20	10	3	65	1.39
1944830--1944866	20	1.9	19	89	10	58	45	10	24	18	1.81
1945013--1945082	37	1.9	37	88	2	106	47	4	0	48	1.21
1952621--1952660	17	2.4	17	86	0	53	67	5	5	22	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1962112--1962166	21	2.6	21	85	0	65	34	32	9	23	1.86
1966825--1966989	41	4.0	41	84	4	219	17	21	21	39	1.92
1966850--1966962	20	5.6	20	84	2	154	14	22	22	41	1.89
1966954--1967046	41	2.3	41	92	1	152	21	17	22	38	1.93
1967123--1967154	6	5.5	6	96	3	57	31	53	15	0	1.43
1967647--1967673	6	4.5	6	100	0	54	0	14	51	33	1.43
1967773--1967886	22	5.4	22	74	14	98	41	26	15	16	1.89
1967858--1967991	20	6.6	20	75	3	124	39	23	21	14	1.91
1967770--1967957	63	3.0	62	81	9	179	41	24	17	17	1.89
1967878--1968033	21	7.6	21	76	4	129	36	24	19	19	1.95

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13