genome.fa.s4862.2.7.7.80.10.50.1000.9.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: VEPZ01004862.1 Hibiscus syriacus cultivar Beakdansim tig00010968_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2846896

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

This is table  9  of  13  ( 1530 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)
1639959--1640764	38	21.2	38	88	2	1116	41	14	17	26	1.88
1643785--1643810	12	2.2	12	100	0	52	15	19	23	42	1.89
1647299--1647340	19	2.2	20	91	4	68	45	7	11	35	1.69
1647553--1647694	37	3.8	37	86	8	182	45	1	4	48	1.32
1648906--1649079	89	2.0	88	95	2	312	44	6	11	37	1.66
1657845--1657869	13	1.9	13	100	0	50	56	4	0	40	1.18
1657858--1657976	28	4.0	28	77	21	134	46	0	6	47	1.29
1657858--1657962	37	3.1	35	80	16	109	47	0	6	45	1.29
1657874--1658028	39	4.4	37	74	21	170	47	0	6	45	1.28
1657858--1658015	65	2.4	66	90	6	259	48	0	6	45	1.28
1657913--1657976	26	2.5	26	97	0	119	45	0	6	48	1.27
1658026--1658112	4	22.2	4	75	20	78	26	0	1	72	0.92
1658024--1658112	18	4.7	18	73	17	72	26	0	1	71	0.92
1685264--1685307	17	2.6	17	92	0	70	56	4	18	20	1.58
1685722--1685756	2	18.5	2	88	11	56	51	0	0	48	1.00
1688605--1689044	221	2.0	221	97	0	837	29	17	20	32	1.96
1689057--1689095	18	2.2	18	90	0	60	30	17	23	28	1.97
1696423--1696662	119	2.0	119	100	0	480	32	26	16	24	1.96
1699876--1699970	47	2.0	47	100	0	190	23	12	34	29	1.92
1702843--1702965	58	2.1	58	98	0	237	34	5	24	35	1.79
1703305--1703399	21	4.4	22	77	13	99	18	20	25	35	1.95
1703392--1703436	23	2.0	23	86	4	65	24	20	17	37	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1703799--1703881	42	2.0	41	97	2	157	51	12	16	19	1.75
1705356--1705528	73	2.4	74	80	10	178	46	4	3	45	1.40
1705427--1705562	37	3.6	38	86	7	172	45	4	4	45	1.43
1710696--1710767	35	2.1	35	86	5	101	58	2	16	22	1.51
1714309--1714346	20	2.0	20	85	10	53	47	5	18	28	1.70
1714959--1715112	77	2.0	77	100	0	308	22	28	10	38	1.87
1715437--1715749	153	2.0	152	97	2	592	29	23	12	34	1.92
1716222--1716513	145	2.0	145	100	0	584	29	22	13	34	1.92
1725049--1725121	8	9.9	8	69	20	52	43	0	2	53	1.15
1725054--1725141	36	2.5	36	80	9	101	44	1	1	53	1.15
1725274--1725381	35	2.9	36	82	9	112	44	3	0	50	1.25
1737939--1737981	22	2.0	22	81	9	52	37	4	4	53	1.43
1739078--1739120	18	2.4	18	92	0	68	20	6	0	72	1.08
1739169--1739220	15	3.6	14	78	21	54	15	3	3	76	1.07
1739229--1739279	10	5.3	10	77	13	54	17	1	0	80	0.81
1739227--1739282	20	2.8	20	79	12	71	17	3	0	78	0.89
1747054--1747656	271	2.2	269	86	4	831	35	21	16	26	1.94
1748490--1748532	18	2.4	18	92	0	68	20	6	0	72	1.08
1748633--1748685	17	3.2	17	76	7	56	20	3	0	75	0.96
1750374--1750424	21	2.4	22	90	9	79	37	9	3	49	1.55
1751045--1751077	2	16.5	2	100	0	66	48	0	0	51	1.00
1752366--1752422	15	3.7	15	72	9	60	22	33	26	17	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1752365--1752434	32	2.2	32	92	0	113	22	30	25	21	1.99
1753033--1753057	7	3.6	7	100	0	50	88	0	0	12	0.53
1755334--1755670	104	3.3	103	81	9	409	22	17	25	34	1.96
1755365--1755658	99	2.9	99	84	8	378	21	19	24	35	1.96
1767441--1767478	2	19.0	2	88	0	58	50	5	0	44	1.24
1768268--1768310	21	2.0	23	81	9	54	53	2	0	44	1.13
1773361--1773417	24	2.4	24	96	0	105	19	33	19	28	1.96
1778968--1779053	27	3.5	26	70	26	87	43	8	26	22	1.81
1778932--1779292	47	7.6	47	88	3	526	42	9	22	24	1.84
1779040--1779167	20	5.7	20	71	22	94	40	10	26	21	1.86
1784842--1784868	2	13.5	2	100	0	54	51	0	0	48	1.00
1785715--1785780	22	3.0	22	100	0	132	13	27	31	27	1.94
1792816--1793088	136	2.0	137	97	2	523	30	21	13	34	1.92
1797989--1798064	30	2.6	30	76	15	86	31	10	0	57	1.32
1798593--1798623	13	2.5	13	94	5	55	0	0	22	77	0.77
1798608--1798658	23	2.2	24	86	10	70	9	3	17	68	1.33
1798642--1798699	10	5.4	10	73	15	53	12	12	17	58	1.63
1798706--1798731	10	2.6	10	100	0	52	50	19	19	11	1.77
1800563--1800602	19	2.1	19	85	0	53	27	32	20	20	1.97
1800586--1800669	10	8.7	9	80	18	89	27	30	28	13	1.94
1800574--1800669	20	4.9	20	90	7	137	28	30	28	13	1.94
1800574--1800669	30	3.3	30	80	17	105	28	30	28	13	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1807747--1807803	7	8.4	7	76	7	64	26	28	26	19	1.99
1807755--1807803	13	3.7	13	81	8	55	26	28	24	20	1.99
1807751--1807803	26	2.0	27	85	10	74	26	28	26	18	1.98
1807801--1807843	14	3.1	14	75	0	50	4	16	51	27	1.64
1807824--1807862	19	2.1	19	95	0	69	7	20	51	20	1.72
1807799--1807857	28	2.1	28	84	6	75	5	18	50	25	1.67
1807859--1807918	20	3.1	19	79	11	68	28	31	23	16	1.96
1810122--1810166	20	2.2	20	84	0	63	37	24	22	15	1.93
1810476--1810511	18	2.0	18	94	0	63	16	2	25	55	1.55
1812539--1812566	14	2.0	14	100	0	56	14	28	7	50	1.69
1812686--1812779	38	2.5	38	92	0	152	25	27	21	25	1.99
1812685--1812750	17	3.6	17	71	15	60	28	28	21	21	1.98
1813617--1813682	20	3.5	20	69	26	63	22	27	33	16	1.96
1813620--1813689	35	2.0	35	97	0	131	20	30	31	18	1.96
1814953--1814977	3	8.3	3	100	0	50	0	36	0	64	0.94
1815152--1815205	24	2.2	24	86	0	72	42	24	12	20	1.87
1815331--1815364	12	2.8	12	90	0	50	14	0	29	55	1.40
1816107--1816157	19	2.7	19	96	0	93	31	7	23	37	1.83
1816126--1816236	20	5.6	21	80	11	110	24	15	22	37	1.93
1816287--1816334	20	2.4	20	86	6	62	29	10	35	25	1.89
1818136--1818160	9	2.8	9	100	0	50	12	0	0	88	0.53
1820764--1820851	23	3.8	23	79	8	106	19	25	25	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1822492--1822534	22	2.0	22	85	0	59	27	27	27	16	1.97
1829695--1830058	131	2.8	130	88	3	507	32	10	16	39	1.83
1832969--1833003	9	4.0	9	85	7	54	51	0	0	48	1.00
1833575--1833648	23	3.1	23	78	5	67	51	2	2	43	1.30
1834734--1834787	27	2.0	27	85	3	72	16	11	40	31	1.84
1836806--1836863	20	3.0	20	79	2	64	39	5	20	34	1.75
1837918--1838022	45	2.3	45	85	0	138	22	19	27	30	1.98
1837918--1838043	45	2.8	44	76	2	126	23	20	25	30	1.99
1838111--1838138	13	2.2	13	100	0	56	14	0	28	57	1.38
1844533--1844559	4	6.8	4	100	0	54	25	0	0	74	0.83
1844573--1844621	6	8.7	6	80	13	59	20	10	0	69	1.17
1844574--1844617	21	2.1	21	95	0	79	20	11	0	68	1.20
1844573--1844610	15	2.8	13	88	11	51	21	10	0	68	1.19
1845707--1845735	14	2.0	15	93	6	51	6	27	13	51	1.66
1847622--1847685	23	2.8	23	78	0	83	32	25	25	17	1.96
1852562--1852621	23	2.6	23	86	0	84	30	26	25	18	1.98
1853043--1853070	2	14.0	2	100	0	56	50	0	0	50	1.00
1860702--1860737	18	1.9	19	88	5	56	69	5	16	8	1.33
1876674--1876744	19	3.5	21	85	9	85	33	15	22	28	1.95
1877073--1877518	55	8.1	55	86	4	555	34	18	17	28	1.94
1879749--1879822	20	3.6	21	77	8	73	25	16	32	25	1.96
1879812--1879868	21	2.7	21	76	7	62	35	14	19	31	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1880180--1880442	59	4.5	59	88	4	419	35	11	22	30	1.89
1889979--1890273	147	2.0	147	100	0	590	34	19	8	37	1.81
1902305--1902682	187	2.0	187	99	0	747	30	14	24	30	1.94
1904313--1904637	115	2.8	116	90	3	523	35	10	22	32	1.87
1904318--1904637	173	1.8	172	90	4	518	35	10	21	32	1.87
1904313--1904656	58	5.9	59	88	4	513	34	10	21	33	1.87
1905044--1905093	23	2.3	21	80	16	57	32	0	12	56	1.36
1905686--1905714	14	2.0	15	93	6	51	48	0	0	51	1.00
1908185--1908252	19	3.6	19	77	0	73	42	4	13	39	1.64
1908193--1908272	38	2.1	39	88	2	117	41	7	12	38	1.71

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