genome.fa.s8909.2.7.7.80.10.50.1000.7.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: VEPZ01008909.1 Hibiscus syriacus cultivar Beakdansim tig00112206_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2327114

Tables:   1   2   3   4   5   6   7   8   

This is table  7  of  8  ( 959 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)
1681414--1681494	31	2.6	32	79	16	89	46	1	0	51	1.08
1681428--1681584	29	5.5	28	67	20	78	46	1	1	50	1.20
1681526--1681581	28	2.0	29	82	10	71	48	0	3	48	1.19
1681539--1681591	20	2.7	19	73	18	54	49	0	1	49	1.12
1681586--1681630	23	2.0	23	86	0	63	53	2	2	42	1.25
1681923--1681957	14	2.5	14	90	0	52	31	20	14	34	1.92
1681965--1682049	15	5.8	15	75	5	75	32	16	8	42	1.78
1688992--1689068	25	2.9	25	81	16	77	61	0	0	38	0.96
1688978--1689065	18	5.0	17	75	19	67	59	0	0	40	0.98
1689875--1689918	23	2.0	21	82	8	52	50	0	20	29	1.49
1694640--1694672	14	2.4	14	100	0	66	30	18	0	51	1.46
1694593--1694718	61	2.1	61	87	3	182	36	15	3	45	1.62
1696435--1696481	16	2.9	16	93	0	76	8	12	44	34	1.73
1697432--1697576	60	2.4	60	86	5	197	43	5	17	33	1.73
1697432--1697603	60	2.9	60	83	5	188	43	5	16	33	1.72
1705123--1705209	43	2.0	43	93	0	147	47	31	8	13	1.72
1705237--1705263	2	13.5	2	100	0	54	48	0	0	51	1.00
1717062--1717088	2	13.5	2	100	0	54	48	0	0	51	1.00
1719451--1719537	23	3.7	23	74	17	88	20	26	26	26	1.99
1738963--1739039	31	2.5	31	80	2	91	27	31	27	14	1.95
1739941--1740009	9	7.1	10	76	12	72	27	30	23	18	1.98
1739939--1740009	19	3.7	19	92	1	106	26	29	25	18	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1745790--1745822	11	3.0	11	87	12	50	9	27	0	63	1.24
1756016--1756051	8	4.4	8	89	3	54	30	0	0	69	0.89
1755995--1756050	27	2.2	25	83	6	67	35	1	0	62	1.06
1767462--1767499	10	3.7	10	92	3	58	26	2	7	63	1.35
1767455--1767507	21	2.5	21	77	17	56	28	1	5	64	1.27
1767460--1767507	10	4.7	10	82	5	51	27	2	6	64	1.28
1780179--1780251	22	3.2	21	70	14	65	41	5	19	34	1.74
1780189--1780263	23	3.3	22	70	15	71	40	6	20	33	1.78
1780163--1780271	46	2.4	46	95	3	195	41	4	19	34	1.72
1780424--1780513	38	2.4	38	90	0	144	25	23	26	24	2.00
1780432--1780500	21	3.5	21	70	22	67	24	27	26	21	1.99
1780667--1780708	20	2.0	21	86	4	59	42	9	9	38	1.70
1780695--1780771	34	2.3	34	97	0	145	40	5	19	35	1.74
1782533--1782561	2	14.5	2	100	0	58	51	0	0	48	1.00
1786363--1786435	22	3.2	21	67	14	56	41	6	19	32	1.78
1786373--1786447	23	3.3	22	70	15	71	40	8	20	32	1.81
1786347--1786459	46	2.5	46	92	4	187	40	6	19	33	1.76
1786608--1786693	38	2.3	38	89	0	136	25	23	26	24	2.00
1786850--1786945	20	5.1	20	70	24	73	42	6	13	37	1.70
1786861--1786974	54	2.1	54	100	0	228	42	6	15	35	1.72
1791481--1791516	3	12.0	3	93	0	63	0	36	0	63	0.94
1794684--1794720	18	2.1	18	85	14	51	43	10	13	32	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1797726--1797851	40	3.2	40	74	8	121	31	15	26	25	1.96
1803274--1803298	11	2.3	11	100	0	50	68	0	0	32	0.90
1805437--1805487	6	8.5	6	97	0	93	37	17	45	0	1.49
1824652--1824734	20	3.9	21	77	17	82	22	33	21	21	1.97
1824652--1824711	20	2.8	20	90	7	84	21	31	21	25	1.98
1824653--1824738	21	4.1	21	77	11	79	22	32	24	20	1.98
1832772--1832858	35	2.5	34	77	18	90	55	9	8	27	1.60
1833425--1833460	18	2.0	18	94	0	63	25	22	27	25	2.00
1835131--1835171	18	2.3	18	91	4	66	63	2	4	29	1.28
1852068--1852102	2	17.5	2	100	0	70	48	0	0	51	1.00
1852180--1852209	2	15.5	2	93	6	53	0	50	0	50	1.00
1855122--1855187	28	2.4	28	94	0	114	28	27	24	19	1.99
1855663--1855708	2	23.0	2	86	0	65	52	4	0	43	1.21
1856587--1856652	24	2.7	22	81	11	60	42	3	4	50	1.38
1856827--1856901	31	2.4	31	88	0	105	46	13	8	32	1.72
1858119--1858156	2	19.0	2	100	0	76	50	0	0	50	1.00
1862830--1862887	30	1.9	30	89	6	91	44	6	10	37	1.65
1862869--1862934	31	2.1	31	85	0	87	51	9	4	34	1.54
1867148--1867180	16	2.1	16	94	0	57	12	9	0	78	0.95
1867176--1867251	31	2.4	32	79	12	86	21	2	5	71	1.19
1872887--1872928	21	2.0	21	95	0	75	30	14	7	47	1.71
1872923--1873021	33	3.0	33	92	1	155	32	8	15	44	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1874239--1874270	16	2.0	17	88	11	50	43	21	21	12	1.86
1875529--1875554	13	2.0	13	100	0	52	30	23	23	23	1.99
1878264--1878291	14	2.0	14	100	0	56	50	7	0	42	1.30
1878558--1878593	10	3.5	10	88	3	54	2	22	22	52	1.59
1879275--1879314	20	2.0	20	90	0	62	55	15	25	5	1.60
1879580--1879607	14	2.0	14	100	0	56	42	0	7	50	1.30
1880260--1880288	12	2.3	13	94	5	51	41	44	3	10	1.55
1885153--1885183	2	15.5	2	100	0	62	51	0	0	48	1.00
1890101--1890176	39	1.9	39	100	0	152	28	32	19	18	1.96
1892244--1892279	18	1.9	19	88	5	56	22	0	0	77	0.76
1897366--1897405	19	2.2	18	86	4	53	55	2	10	32	1.47
1902092--1902150	16	3.8	16	78	8	59	32	0	1	66	1.02
1902085--1902156	24	3.2	23	80	18	80	29	0	1	69	0.97
1903893--1903957	34	1.9	34	87	0	94	20	43	15	21	1.88
1906759--1906815	25	2.3	25	75	6	62	40	24	14	21	1.90
1907306--1907377	22	3.3	22	88	5	110	27	20	25	26	1.99
1907314--1907376	21	3.0	21	92	2	99	23	23	26	25	2.00
1907841--1907997	64	2.4	63	80	10	158	28	18	20	33	1.96
1913714--1913770	25	2.3	25	75	6	62	40	24	14	21	1.90
1914261--1914332	22	3.3	22	88	5	110	27	20	25	26	1.99
1914269--1914331	21	3.0	21	92	2	99	23	23	26	25	2.00
1914796--1914952	64	2.4	63	80	10	158	28	18	20	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1919163--1919212	2	25.0	2	100	0	100	50	0	0	50	1.00
1919297--1919338	22	2.0	21	86	13	59	33	2	2	61	1.21
1919904--1919996	32	2.9	32	80	0	87	39	10	6	43	1.65
1929061--1929133	15	5.1	15	69	15	64	42	1	2	53	1.23
1929046--1929134	42	2.1	42	97	0	169	40	2	4	52	1.34
1935575--1935631	29	2.0	29	92	0	96	31	26	10	31	1.90
1938716--1938780	23	2.8	23	75	9	62	38	21	1	38	1.63
1950469--1950503	16	2.1	16	89	5	52	28	11	25	34	1.91
1955914--1955950	20	2.0	20	84	10	51	64	2	0	32	1.07
1959542--1959575	12	2.8	12	81	0	50	44	14	17	23	1.86
1959997--1960038	17	2.5	17	85	14	52	66	0	4	28	1.12
1965292--1965329	17	2.2	18	86	13	53	68	0	5	26	1.11
1965962--1966073	34	3.1	37	83	14	146	30	13	21	34	1.92
1965986--1966073	34	2.6	34	98	0	167	30	15	21	31	1.95
1968309--1968341	10	3.4	10	83	8	50	78	0	0	21	0.75
1970798--1970871	34	2.2	33	83	9	89	39	0	1	59	1.06
1970788--1970871	34	2.6	31	79	7	87	39	0	2	58	1.11
1971017--1971070	17	3.2	17	72	0	54	31	0	3	64	1.11
1972652--1972745	21	4.5	21	90	5	127	18	31	27	22	1.97
1972628--1972745	42	2.8	42	81	7	132	19	32	24	23	1.98
1973267--1973364	34	2.9	34	89	0	142	55	4	4	36	1.38
1973764--1974266	128	3.9	128	96	0	925	33	20	23	22	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1974337--1974377	8	5.2	8	82	5	57	36	29	0	34	1.58
1980204--1980278	31	2.4	31	88	0	105	20	10	17	52	1.74
1986319--1986346	10	2.8	10	100	0	56	21	25	10	42	1.85
1991827--1991896	31	2.3	31	85	2	88	21	12	15	50	1.78
1992877--1992919	18	2.4	18	96	0	77	65	16	4	13	1.43
1993756--1993832	30	2.5	31	85	4	111	53	12	12	20	1.72
2001664--2001738	31	2.4	31	86	0	105	34	4	6	54	1.45
2010122--2010186	26	2.4	28	84	7	80	33	3	4	58	1.34
2015734--2015780	16	3.1	15	79	8	51	23	2	6	68	1.24
2018215--2018252	3	12.7	3	88	0	58	5	34	26	34	1.79

Tables:   1   2   3   4   5   6   7   8