genome.fa.s9572.2.7.7.80.10.50.1000.9.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: VEPZ01009572.1 Hibiscus syriacus cultivar Beakdansim tig00116937_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2529503

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

This is table  9  of  13  ( 1477 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)
1738443--1738473	15	2.0	16	93	6	55	41	0	0	58	0.98
1738987--1739016	16	1.9	15	93	6	51	26	3	20	50	1.64
1739228--1739279	21	2.5	21	81	3	61	38	19	25	17	1.93
1739310--1739362	20	2.7	20	87	0	70	26	26	18	28	1.98
1739879--1739945	19	3.5	19	81	2	80	49	25	16	8	1.74
1739941--1740085	19	8.1	19	75	16	130	11	24	20	44	1.83
1739941--1740077	52	2.6	52	90	1	202	10	24	21	43	1.84
1739996--1740060	33	2.0	33	90	0	103	10	26	23	40	1.87
1742352--1742405	20	2.7	20	76	21	67	38	20	22	18	1.93
1742408--1742465	14	3.9	14	79	16	71	48	24	17	10	1.78
1742392--1742470	32	2.4	33	95	2	142	46	22	18	11	1.81
1742499--1742556	14	3.9	14	79	16	71	10	17	24	48	1.78
1742482--1742572	32	2.8	33	94	3	166	12	18	21	47	1.81
1742557--1742611	20	2.8	19	83	8	65	16	23	23	36	1.94
1743093--1743137	18	2.5	18	88	0	72	13	15	44	26	1.83
1744457--1744515	20	3.0	20	87	0	73	42	22	18	16	1.89
1744778--1744821	22	2.0	22	90	0	70	20	15	43	20	1.88
1745001--1745053	20	2.7	20	93	0	88	26	20	28	24	1.99
1745062--1745135	20	3.7	20	96	0	130	25	17	24	32	1.97
1745002--1745135	40	3.3	40	80	6	144	24	17	25	32	1.97
1745002--1745156	81	1.9	81	80	2	177	23	19	23	32	1.97
1749093--1749126	16	2.1	16	94	0	59	23	14	11	50	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1751317--1751355	16	2.4	16	84	12	53	2	10	2	84	0.81
1751317--1751356	17	2.4	17	84	12	55	2	10	2	85	0.80
1751317--1751358	18	2.4	17	84	4	57	2	9	2	85	0.77
1751845--1751874	15	1.9	16	93	6	53	73	0	3	23	0.98
1754674--1754707	17	2.0	17	88	0	50	5	17	26	50	1.69
1755224--1755311	19	4.8	18	82	10	99	57	0	4	37	1.19
1755230--1755293	3	20.7	3	87	6	83	60	0	4	34	1.17
1755478--1755830	134	2.6	134	87	1	519	29	16	20	33	1.95
1756943--1756996	23	2.3	23	93	0	90	18	22	14	44	1.86
1757040--1757193	7	20.7	7	78	15	132	5	16	0	77	0.94
1758251--1758284	17	2.1	16	88	5	50	76	0	8	14	1.01
1758752--1758801	24	2.1	24	85	7	66	60	12	2	26	1.43
1769598--1769909	152	2.0	157	95	5	562	18	30	18	32	1.95
1772399--1772562	81	2.0	82	98	1	321	25	28	18	28	1.98
1781089--1781213	50	2.5	50	84	1	153	34	16	16	33	1.90
1781128--1781226	49	2.0	50	84	5	130	34	20	16	29	1.94
1785400--1785429	15	1.9	16	93	6	53	36	0	6	56	1.26
1792804--1792846	16	2.8	16	80	16	54	30	27	6	34	1.83
1794990--1795047	25	2.3	25	100	0	116	31	17	10	41	1.83
1795304--1795337	17	2.0	17	88	0	50	5	17	26	50	1.69
1795865--1795917	3	17.3	3	96	3	97	66	0	0	33	0.92
1796481--1796602	30	4.1	30	97	0	235	44	6	12	36	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1796966--1797011	16	2.9	16	75	15	51	65	2	2	30	1.16
1801216--1801252	14	2.6	15	87	8	51	62	2	2	32	1.23
1802057--1802145	19	4.5	19	77	13	81	41	2	3	52	1.30
1802057--1802145	21	4.4	20	75	17	78	41	2	3	52	1.30
1813641--1813686	24	2.1	22	84	15	60	10	15	21	52	1.73
1814467--1814509	14	2.7	17	79	20	65	27	23	18	30	1.98
1815014--1815073	28	2.2	27	90	3	93	46	16	11	25	1.81
1816264--1816305	22	1.9	22	85	9	59	40	26	7	26	1.81
1818423--1818457	12	2.9	12	95	0	61	5	48	0	45	1.26
1818689--1818727	12	3.3	12	92	3	62	5	43	0	51	1.24
1819178--1819207	15	2.0	15	100	0	60	33	13	46	6	1.69
1823722--1823753	3	10.7	3	93	0	55	3	34	28	34	1.73
1823720--1823750	15	2.1	15	100	0	62	6	35	25	32	1.82
1825768--1825803	18	2.1	18	89	5	56	61	2	5	30	1.33
1826900--1826971	33	2.2	33	85	4	94	40	15	9	34	1.80
1832395--1832440	21	2.1	22	84	4	58	58	2	17	21	1.49
1832373--1832430	21	2.8	21	78	17	59	60	3	18	17	1.50
1832374--1832440	21	3.1	21	77	10	57	58	2	17	20	1.52
1833022--1833179	85	1.9	84	84	6	212	42	9	13	34	1.76
1833200--1833883	193	3.5	194	82	7	766	31	16	13	38	1.87
1834175--1834407	116	2.0	117	95	4	427	40	10	13	35	1.80
1835463--1835509	22	2.0	24	84	8	62	59	4	2	34	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1843768--1843807	14	3.1	13	82	10	55	60	0	0	40	0.97
1845194--1845239	3	15.3	3	100	0	92	65	0	0	34	0.93
1845572--1846292	112	6.5	112	93	2	1166	29	19	14	37	1.90
1847038--1847511	83	5.7	83	96	2	857	36	21	14	28	1.92
1859816--1859855	14	3.1	13	82	10	55	60	0	0	40	0.97
1861203--1861250	3	16.3	3	91	4	80	62	0	0	37	0.95
1865258--1865349	3	31.7	3	72	14	77	39	0	0	60	0.97
1865259--1865342	38	2.2	40	93	4	145	39	0	0	60	0.97
1865271--1865347	26	2.9	26	86	9	111	40	0	0	59	0.97
1865317--1865361	20	2.3	20	84	3	56	40	0	0	60	0.97
1866927--1866975	23	2.0	25	84	7	66	44	2	0	53	1.12
1867446--1867499	28	2.0	27	85	3	72	33	5	1	59	1.31
1867463--1867520	24	2.4	24	77	11	57	31	5	1	62	1.27
1870773--1870804	15	2.1	15	94	0	55	25	18	9	46	1.79
1874571--1874602	9	3.6	9	100	0	64	21	25	0	53	1.46
1878100--1878178	7	11.1	7	76	15	74	81	0	16	2	0.81
1878125--1878179	6	9.0	6	80	11	58	80	0	20	0	0.72
1878110--1878178	27	2.7	25	79	18	88	81	0	17	1	0.77
1878117--1878178	25	2.4	26	86	10	92	82	0	17	0	0.67
1879672--1880804	113	10.0	113	87	3	1500	38	15	17	28	1.90
1879672--1880683	335	3.0	336	91	2	1602	38	15	17	28	1.90
1881021--1881128	3	36.7	3	75	14	100	37	0	0	62	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1881022--1881151	38	3.3	39	83	8	158	37	0	0	61	1.02
1881101--1881144	17	2.6	18	82	10	56	36	0	0	63	0.95
1882630--1882671	20	2.2	19	86	4	57	33	0	2	64	1.07
1882718--1882766	23	2.0	25	84	7	66	44	2	0	53	1.12
1884248--1884452	56	3.8	56	73	12	185	23	17	20	38	1.93
1884244--1884457	106	2.0	106	84	5	281	22	17	20	39	1.92
1904176--1904214	14	2.8	14	92	0	60	41	30	5	23	1.76
1912065--1912163	42	2.4	42	89	3	157	27	15	22	35	1.94
1924385--1924424	3	13.0	3	84	5	53	40	0	0	60	0.97
1924390--1924443	28	2.0	25	86	10	72	40	1	0	57	1.09
1944443--1944510	14	4.8	14	82	8	66	77	0	7	14	0.96
1944442--1944503	15	4.3	15	80	14	58	79	0	8	12	0.94
1944465--1944510	14	3.2	15	90	6	69	80	0	6	13	0.89
1945126--1945156	13	2.4	13	100	0	62	29	0	0	70	0.87
1945735--1945767	11	3.1	11	91	4	50	81	0	18	0	0.68
1945736--1945791	15	3.7	15	76	9	60	76	3	19	0	0.93
1947271--1947332	29	2.2	28	81	16	74	24	12	3	59	1.48
1947582--1947635	12	4.6	11	80	11	54	44	44	3	7	1.49
1947989--1948089	39	2.5	41	78	15	102	50	13	9	25	1.73
1950651--1950929	153	1.8	153	84	3	382	36	7	17	37	1.79
1953856--1954053	94	2.1	96	90	1	310	27	14	16	41	1.86
1953856--1954120	94	2.8	94	82	4	300	27	12	16	42	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1958766--1959052	96	3.0	96	89	0	403	28	12	16	43	1.84
1962356--1962593	115	2.1	116	89	4	365	35	17	21	25	1.95
1963145--1963222	3	24.7	3	84	5	84	37	1	0	61	1.04
1963147--1963226	27	3.0	25	87	9	97	40	1	0	58	1.06
1963228--1963279	18	2.9	18	79	0	59	48	40	5	5	1.51
1963234--1963294	24	2.6	23	76	7	59	45	40	8	4	1.55
1966184--1966226	2	21.5	2	100	0	86	51	0	0	48	1.00
1966662--1966754	23	4.0	23	90	0	141	11	27	13	46	1.79
1971999--1972088	42	2.1	42	81	0	99	27	18	22	31	1.97
1972461--1972505	18	2.6	18	89	3	74	15	26	20	37	1.92

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