genome.fa.s7768.2.7.7.80.10.50.1000.8.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: VEPZ01007768.1 Hibiscus syriacus cultivar Beakdansim tig00110044_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2539099

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

This is table  8  of  11  ( 1290 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)
1685997--1686026	15	1.9	16	93	6	53	30	0	26	43	1.55
1688075--1688103	2	14.5	2	100	0	58	51	0	0	48	1.00
1689861--1689936	20	3.9	18	77	16	64	39	10	14	35	1.81
1689940--1690011	21	3.5	21	85	11	71	33	15	16	34	1.90
1689955--1690017	21	3.0	20	90	6	90	36	15	12	34	1.86
1693372--1693482	35	3.2	34	80	2	123	42	22	0	34	1.60
1696309--1696350	22	1.9	22	85	9	59	38	7	9	45	1.64
1702439--1702520	10	8.2	10	90	0	110	50	7	0	42	1.30
1702439--1702520	14	5.9	14	92	0	110	50	7	0	42	1.30
1702446--1702520	18	4.2	18	92	0	105	50	6	0	42	1.28
1702439--1702520	4	20.5	4	92	0	110	50	7	0	42	1.30
1707986--1708113	59	2.1	61	81	5	145	41	11	10	35	1.77
1710868--1710937	31	2.3	31	79	0	86	52	14	5	27	1.63
1713871--1713958	32	2.9	30	78	9	97	51	6	4	37	1.49
1720705--1720729	3	8.3	3	100	0	50	32	0	0	68	0.90
1720727--1720759	2	17.0	2	93	6	59	48	0	0	51	1.00
1720900--1720935	18	2.0	18	100	0	72	27	16	0	55	1.42
1720960--1720985	2	13.0	2	100	0	52	50	0	0	50	1.00
1721186--1721214	2	14.5	2	100	0	58	48	0	0	51	1.00
1727792--1727872	22	3.7	22	94	0	144	32	8	16	43	1.78
1736839--1736863	3	8.3	3	100	0	50	68	32	0	0	0.90
1737634--1737677	22	2.0	23	81	4	54	56	6	2	34	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1740103--1740193	32	2.9	31	77	4	92	34	6	13	46	1.69
1741091--1741151	25	2.4	26	81	13	74	52	0	1	45	1.10
1742497--1742609	60	1.9	60	83	3	147	38	14	14	33	1.86
1746799--1746851	20	2.7	20	87	0	70	33	18	32	15	1.92
1747193--1747325	70	1.9	70	88	0	203	13	15	15	55	1.69
1751886--1751988	30	3.4	30	91	2	154	18	35	21	24	1.95
1758805--1758848	2	22.0	2	90	9	72	50	2	0	47	1.13
1763492--1763547	24	2.4	24	78	3	60	82	1	8	7	0.92
1771620--1771712	21	4.6	20	78	4	96	38	18	24	18	1.92
1771617--1771712	41	2.3	41	98	0	183	39	17	23	18	1.92
1771620--1771712	20	4.6	20	78	4	96	38	18	24	18	1.92
1771639--1771773	41	3.3	41	81	6	123	37	20	21	20	1.94
1771701--1771795	20	4.7	20	80	2	91	34	24	17	23	1.96
1771983--1772026	22	2.0	22	95	0	79	20	45	15	18	1.85
1772290--1772327	20	1.9	20	88	0	58	13	15	21	50	1.78
1773647--1773691	18	2.5	18	85	0	63	26	42	15	15	1.87
1774164--1774209	20	2.3	20	84	0	56	36	23	21	17	1.94
1774175--1774219	20	2.3	20	88	3	74	37	17	24	20	1.93
1774183--1774298	19	6.6	19	69	21	74	43	22	20	12	1.86
1774219--1774276	14	3.9	14	79	16	71	50	25	15	8	1.73
1774203--1774293	32	2.8	33	91	3	157	48	23	17	10	1.79
1774310--1774399	14	5.9	14	76	19	90	8	16	25	48	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1774305--1774415	32	3.4	32	94	1	195	9	18	24	47	1.78
1774324--1774473	20	8.4	19	75	14	99	12	19	24	43	1.86
1776323--1776358	14	2.6	14	90	0	54	30	0	22	47	1.52
1777603--1777661	24	2.5	24	82	0	73	28	16	18	35	1.93
1777836--1777860	12	2.1	12	100	0	50	72	0	28	0	0.86
1780550--1780690	19	7.8	19	69	17	86	43	19	24	13	1.86
1780575--1780673	33	3.0	33	89	1	144	39	21	26	13	1.90
1780645--1780695	19	2.7	19	96	0	93	45	21	21	11	1.84
1781262--1781355	20	4.7	20	80	2	89	23	18	24	34	1.96
1781283--1781417	41	3.3	41	81	4	130	20	21	20	37	1.94
1781344--1781436	20	4.6	20	78	4	96	18	24	18	38	1.92
1781344--1781439	41	2.3	41	98	0	183	18	23	17	39	1.92
1785784--1785840	21	2.7	21	100	0	114	26	24	26	22	2.00
1785780--1785853	21	3.5	21	90	0	103	25	24	27	22	2.00
1787181--1787239	31	2.0	29	83	6	73	50	10	10	28	1.68
1794220--1794262	21	2.0	22	81	4	52	30	27	16	25	1.97
1797219--1797269	24	2.0	26	88	7	79	35	0	1	62	1.06
1804853--1804910	23	2.6	22	91	2	89	24	29	27	18	1.98
1806881--1806919	17	2.3	17	86	0	51	12	2	25	58	1.47
1808300--1808335	12	3.2	12	81	18	51	38	5	0	55	1.23
1808425--1808450	2	13.0	2	100	0	52	50	0	0	50	1.00
1810296--1810371	15	5.1	15	71	17	68	47	0	2	50	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1810320--1810387	19	3.2	19	67	25	55	50	0	1	48	1.10
1810302--1810387	45	1.9	45	100	0	172	47	0	2	50	1.14
1812584--1813074	41	11.9	41	84	1	536	29	19	17	33	1.95
1815328--1815650	43	7.5	42	82	4	326	22	21	21	34	1.97
1815328--1815650	128	2.5	128	80	6	348	22	21	21	34	1.97
1815328--1815650	85	3.8	86	82	5	370	22	21	21	34	1.97
1818471--1818565	32	3.0	32	87	0	136	24	25	24	26	2.00
1821336--1821370	14	2.5	14	95	0	61	45	17	8	28	1.77
1825841--1825909	29	2.4	29	82	2	77	30	23	7	39	1.82
1826757--1826783	2	13.5	2	100	0	54	51	0	0	48	1.00
1826941--1826967	2	13.5	2	100	0	54	48	0	0	51	1.00
1838868--1838911	21	2.1	21	86	0	61	31	13	18	36	1.90
1839282--1839321	21	1.9	21	85	10	55	40	5	0	55	1.22
1844183--1844568	141	2.7	141	88	3	539	45	17	15	22	1.85
1848540--1848612	18	4.4	18	78	18	88	17	50	20	10	1.76
1848560--1848596	13	2.8	13	91	0	65	16	48	21	13	1.80
1849923--1849957	18	1.9	18	88	0	52	54	0	17	28	1.43
1853715--1853789	18	4.4	18	80	16	106	17	50	20	12	1.77
1853719--1853796	31	2.5	31	93	2	140	16	47	21	14	1.82
1853737--1853773	13	2.8	13	91	0	65	16	48	21	13	1.80
1853786--1853819	7	4.7	7	85	7	50	17	32	26	23	1.97
1853788--1853818	15	2.1	15	93	0	53	16	35	22	25	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1857674--1857745	38	1.9	37	91	2	117	58	6	8	26	1.53
1858357--1858402	23	2.0	23	83	8	58	23	2	10	63	1.38
1859744--1859961	103	2.1	103	95	0	391	36	23	13	26	1.92
1862849--1862896	20	2.3	21	76	16	55	54	2	2	41	1.24
1875053--1875117	4	17.2	4	84	12	93	50	23	1	24	1.58
1875053--1875117	34	1.9	34	96	0	121	50	23	1	24	1.58
1875063--1875149	12	6.8	12	77	12	75	50	17	0	32	1.46
1876480--1876533	17	3.3	16	79	10	56	22	33	27	16	1.95
1876559--1876613	15	3.4	16	80	7	67	25	29	30	14	1.95
1879160--1879525	183	2.0	182	96	0	678	31	18	18	31	1.95
1885676--1885736	31	2.0	31	93	0	104	40	4	8	45	1.55
1885760--1885875	22	5.3	22	86	2	171	46	10	0	43	1.38
1885760--1885875	43	2.7	44	89	2	171	46	10	0	43	1.38
1887332--1887662	22	15.2	22	86	6	469	49	11	0	38	1.39
1888879--1888987	51	2.2	49	95	5	191	34	18	11	34	1.87
1895660--1895705	21	2.1	22	88	4	67	34	0	0	65	0.93
1898773--1898822	26	2.0	25	88	4	73	60	2	2	36	1.20
1899143--1899175	10	3.3	10	95	0	57	63	0	15	21	1.30
1899953--1900005	21	2.5	22	84	6	74	18	26	18	35	1.95
1899980--1900068	41	2.1	42	79	2	99	34	17	21	25	1.96
1899995--1900067	21	3.5	21	92	1	112	38	16	23	21	1.93
1900053--1900168	41	2.8	42	85	5	132	32	26	18	21	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1900057--1900250	20	9.6	20	87	3	237	28	26	19	25	1.98
1900404--1900437	12	2.9	12	86	4	52	17	41	5	35	1.74
1901585--1901645	21	2.9	21	73	9	70	21	13	42	22	1.87
1902460--1902667	30	7.1	30	91	5	338	29	24	23	22	1.99
1902462--1902667	85	2.4	88	90	6	330	30	24	23	22	1.99
1902656--1902751	29	3.2	30	76	15	99	33	17	18	30	1.95
1903903--1903947	21	2.1	21	87	0	63	15	24	28	31	1.96
1907068--1907276	29	7.1	30	91	5	331	29	25	22	22	1.99
1907271--1907363	31	2.9	32	81	7	118	34	16	18	31	1.93
1907271--1907363	32	3.0	31	80	13	118	34	16	18	31	1.93

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