genome.fa.s9343.2.7.7.80.10.50.1000.10.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: VEPZ01009343.1 Hibiscus syriacus cultivar Beakdansim tig00113123_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2141224

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

This is table  10  of  11  ( 1269 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)
1777853--1777902	15	3.3	15	71	20	50	28	2	6	64	1.28
1780254--1780309	21	2.6	21	91	2	94	12	7	41	39	1.70
1780338--1780408	21	3.4	21	94	0	124	25	26	23	23	2.00
1781039--1781094	13	3.9	13	76	19	58	60	7	1	30	1.33
1781041--1781076	18	2.1	18	90	10	58	61	5	2	30	1.33
1781161--1781189	15	1.9	15	100	0	58	34	20	6	37	1.80
1781795--1781858	13	4.5	13	80	19	74	29	0	6	64	1.18
1781795--1781858	31	2.1	30	97	2	119	29	0	6	64	1.18
1781880--1782155	144	1.9	145	88	1	419	17	26	21	35	1.95
1782302--1782331	15	2.0	15	93	0	51	20	0	23	56	1.42
1782432--1782501	32	2.2	32	87	5	97	20	31	4	44	1.70
1786836--1786958	62	2.0	62	100	0	246	51	13	6	29	1.65
1789546--1789585	14	2.7	14	84	7	53	32	2	0	65	1.06
1789570--1789613	2	22.5	2	84	13	56	43	4	0	52	1.22
1789870--1789904	18	2.0	18	88	5	54	14	14	0	71	1.15
1793022--1793070	20	2.5	19	84	12	64	79	4	12	4	1.01
1793033--1793070	20	2.0	20	94	5	69	78	5	10	5	1.06
1793142--1793275	69	1.9	69	93	3	234	38	20	14	26	1.91
1793676--1793724	24	2.0	24	96	0	89	36	24	14	24	1.93
1794224--1794311	32	2.7	31	82	6	113	29	15	20	34	1.94
1794887--1795220	106	3.2	106	85	2	420	35	23	17	23	1.95
1795438--1795595	65	2.4	65	84	2	210	28	19	12	39	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1795356--1795706	167	2.1	165	90	2	551	29	17	12	40	1.86
1795506--1795723	100	2.2	102	80	5	239	26	18	13	40	1.88
1795554--1795870	136	2.3	138	91	2	505	27	18	14	39	1.89
1795655--1795777	36	3.4	36	79	2	138	23	18	14	43	1.87
1795506--1795971	238	2.0	240	83	4	602	28	18	13	39	1.89
1795807--1795879	37	2.0	37	83	0	92	27	21	13	36	1.92
1795744--1796008	102	2.6	101	89	2	388	30	18	13	37	1.89
1795890--1795977	36	2.5	36	83	1	106	29	19	12	38	1.88
1795963--1796021	30	2.0	30	83	12	77	37	16	11	33	1.86
1796046--1796143	36	2.8	34	84	9	110	21	17	17	43	1.87
1796163--1796246	36	2.4	35	90	5	127	40	17	8	33	1.80
1796254--1796411	84	1.9	85	84	4	212	29	24	19	25	1.98
1797447--1797519	20	3.5	19	68	24	58	32	4	0	63	1.14
1797483--1797521	14	2.7	14	84	4	51	35	0	0	64	0.94
1797849--1797896	19	2.6	18	78	12	53	20	2	2	75	1.02
1802554--1803015	231	2.0	231	100	0	924	28	16	19	34	1.94
1808639--1808680	2	21.0	2	100	0	84	0	50	0	50	1.00
1816201--1816312	44	2.5	44	88	5	145	16	24	12	47	1.80
1816217--1816312	44	2.1	46	92	3	160	15	25	11	47	1.79
1830004--1830393	127	3.1	127	89	0	573	45	16	17	20	1.86
1831594--1832068	134	3.6	134	93	1	794	24	17	30	27	1.97
1832077--1832137	29	2.1	29	90	6	97	44	14	16	24	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1832300--1832439	64	2.2	64	84	3	174	43	13	9	33	1.76
1832605--1832679	31	2.4	31	82	8	82	40	13	17	29	1.87
1832971--1833003	16	2.1	16	100	0	66	30	6	24	39	1.79
1832937--1833040	53	2.0	51	83	10	131	34	10	19	35	1.86
1833650--1833714	4	16.8	4	81	12	82	24	0	24	50	1.49
1835050--1835092	21	2.0	21	90	0	68	32	27	23	16	1.96
1835120--1835157	20	1.9	20	88	0	58	23	34	31	10	1.89
1835635--1835955	103	3.1	103	97	0	597	25	14	23	36	1.93
1835972--1836034	23	2.7	23	83	13	85	20	23	26	28	1.99
1840054--1840108	18	3.0	19	84	10	62	1	16	10	70	1.23
1840084--1840164	27	3.1	24	77	20	83	2	14	8	74	1.17
1840105--1840142	19	2.0	20	84	5	51	2	21	7	68	1.28
1840075--1840204	70	1.9	68	83	12	167	2	14	8	74	1.15
1840100--1840233	21	6.1	21	71	15	85	2	14	8	74	1.14
1842288--1842347	32	2.0	31	83	9	79	60	8	18	13	1.58
1844488--1844848	128	2.8	132	84	3	471	46	17	15	21	1.84
1844826--1844858	4	8.2	4	100	0	66	75	0	0	24	0.80
1848998--1849051	23	2.3	23	93	0	90	42	9	3	44	1.54
1863314--1863365	26	2.0	26	96	0	95	28	19	5	46	1.73
1868165--1868197	16	2.1	16	100	0	66	30	18	0	51	1.46
1870062--1870096	16	2.1	17	94	5	63	31	0	5	62	1.18
1870068--1870104	16	2.2	16	90	4	56	32	0	5	62	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1877491--1877537	3	15.7	3	82	8	60	29	2	0	68	1.02
1877494--1877546	27	2.0	27	85	7	72	30	1	0	67	1.01
1879541--1879908	182	2.0	183	95	3	672	33	16	10	38	1.84
1880292--1880325	3	11.3	3	93	0	59	32	2	0	64	1.08
1886026--1886117	41	2.2	41	94	0	157	23	13	21	41	1.88
1891638--1891880	43	5.7	43	91	0	387	18	29	24	27	1.98
1895738--1895766	2	14.5	2	100	0	58	48	0	0	51	1.00
1895764--1895840	3	25.7	3	92	5	111	29	0	5	64	1.15
1895920--1895960	18	2.3	18	91	0	64	26	51	9	12	1.70
1897472--1897501	11	2.6	12	94	5	53	36	10	6	46	1.64
1902281--1902313	6	5.7	6	92	7	59	0	30	0	69	0.88
1902310--1902368	27	2.2	27	84	0	82	8	8	3	79	1.03
1902347--1902395	10	4.5	11	82	17	59	18	4	0	77	0.92
1902338--1902401	20	3.2	20	82	12	69	17	6	0	76	0.98
1902354--1902401	10	4.7	10	85	12	62	18	4	0	77	0.93
1909753--1910157	208	1.9	208	93	0	693	31	19	20	29	1.96
1914700--1914733	17	1.9	18	88	5	52	26	11	0	61	1.30
1914738--1914775	2	19.0	2	100	0	76	50	0	0	50	1.00
1914870--1914948	2	41.5	2	86	9	112	44	0	1	54	1.08
1914870--1914949	22	3.5	23	91	6	128	43	0	1	55	1.08
1914872--1914968	11	9.8	10	85	13	91	41	0	1	57	1.05
1915024--1915080	16	3.5	15	75	15	51	8	5	3	82	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1915002--1915075	38	1.9	38	83	8	96	8	8	4	79	1.04
1915001--1915063	29	2.3	27	81	8	65	7	9	4	77	1.10
1915025--1915127	38	2.5	41	81	15	106	11	8	3	75	1.15
1920554--1920627	2	36.5	2	84	8	78	43	4	4	48	1.40
1920519--1920627	53	2.1	54	98	0	195	40	5	5	48	1.49
1922550--1922591	17	2.5	17	88	3	68	21	2	21	54	1.56
1927566--1927618	27	2.0	26	92	3	88	26	30	3	39	1.74
1930681--1930766	31	2.8	30	79	10	102	34	1	16	47	1.54
1948061--1948106	11	4.0	12	80	11	51	15	13	2	69	1.28
1948068--1948110	23	1.9	22	90	4	68	13	11	4	69	1.33
1948369--1948412	20	2.1	20	87	8	61	34	0	29	36	1.58
1956648--1956701	29	1.9	27	85	7	72	31	29	18	20	1.96
1960860--1960998	60	2.3	60	80	6	147	38	12	15	33	1.85
1964633--1964730	49	2.0	50	87	2	144	14	8	14	63	1.52
1964725--1964757	17	1.9	17	93	0	57	33	0	6	60	1.21
1968086--1968158	33	2.2	33	90	4	112	15	10	12	61	1.56
1968156--1968185	15	2.0	15	93	0	51	23	3	6	66	1.30
1978989--1979027	20	2.0	19	85	5	51	23	15	0	61	1.33
1982497--1982534	11	3.4	11	89	7	58	86	0	10	2	0.66
1982493--1982538	21	2.2	21	88	7	67	80	0	17	2	0.81
1983489--1983813	133	2.5	130	91	6	534	35	17	22	24	1.95
1985426--1985660	115	2.0	117	95	3	431	28	10	7	52	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1990084--1990120	15	2.5	15	84	16	51	59	0	2	37	1.12
1994267--1994381	60	1.9	60	82	3	142	37	12	14	35	1.84
1996033--1996069	2	18.5	2	100	0	74	51	0	0	48	1.00
1996441--1996474	18	1.9	17	88	5	50	61	0	0	38	0.96
1998240--1998276	16	2.3	16	90	9	58	78	0	0	21	0.75
1998243--1998273	11	2.7	11	95	5	53	80	0	0	19	0.71
1998273--1998606	34	9.3	35	74	15	211	46	7	3	43	1.48
1998301--1998549	37	7.0	36	76	13	184	44	7	4	42	1.54
1998424--1998448	11	2.3	11	100	0	50	44	8	8	40	1.63
1998381--1998624	71	3.3	70	80	11	201	43	7	4	44	1.52

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