genome.fa.s389.2.7.7.80.10.50.1000.11.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: VEPZ01000389.1 Hibiscus syriacus cultivar Beakdansim tig00000715_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2672246

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   

This is table  11  of  15  ( 1688 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)
1820114--1820172	30	2.0	30	96	0	109	49	10	10	30	1.70
1823415--1823441	2	13.5	2	100	0	54	48	0	0	51	1.00
1830583--1830922	114	3.0	114	98	0	662	20	12	20	46	1.83
1834293--1834397	55	1.9	55	86	0	147	31	18	8	41	1.80
1838719--1838773	22	2.6	22	72	16	55	30	3	12	52	1.56
1838733--1838779	23	2.1	22	84	4	58	31	6	12	48	1.66
1838988--1839044	20	2.8	20	94	0	96	38	19	17	24	1.93
1839239--1839300	18	3.0	22	69	26	62	27	38	16	17	1.91
1839535--1839567	11	2.8	12	90	9	59	0	9	9	81	0.87
1839645--1839693	20	2.5	20	86	0	71	34	24	20	20	1.96
1839706--1839792	20	4.4	20	86	1	95	14	17	22	44	1.85
1839757--1839800	20	2.2	20	87	0	61	13	13	20	52	1.74
1841678--1841761	20	4.5	20	78	17	99	41	22	20	15	1.89
1841701--1841793	34	2.8	34	91	1	143	44	21	21	12	1.86
1841808--1841894	20	4.3	20	95	0	147	20	19	21	37	1.94
1842379--1842420	21	2.2	19	87	12	59	21	35	19	23	1.96
1842402--1842478	21	3.7	21	77	10	68	22	35	19	23	1.96
1842426--1842473	20	2.3	20	85	3	60	25	29	20	25	1.99
1843836--1843871	14	2.6	14	90	0	54	30	0	22	47	1.52
1843973--1844068	33	2.9	34	89	6	142	42	20	21	14	1.88
1843865--1844510	237	2.7	237	96	0	1195	33	13	19	32	1.91
1844209--1844304	33	2.8	33	87	3	129	41	19	23	14	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1844446--1844509	33	1.9	34	87	3	94	40	21	25	12	1.88
1844516--1844649	33	3.8	33	78	11	133	15	22	17	44	1.87
1844511--1844616	19	5.8	19	80	11	132	15	20	16	47	1.83
1844623--1844709	20	4.3	20	82	2	113	18	19	24	37	1.94
1844621--1844709	40	2.2	41	88	4	137	19	20	23	37	1.94
1850872--1850910	18	2.2	18	85	0	51	28	30	15	25	1.96
1851197--1851227	12	2.6	12	94	0	53	32	25	35	6	1.82
1858567--1858618	22	2.4	22	100	0	104	34	3	21	40	1.71
1861815--1861865	19	2.7	19	96	0	93	29	25	21	23	1.99
1861913--1861959	21	2.2	21	84	0	67	19	27	17	36	1.93
1862786--1863041	126	2.0	125	94	5	446	29	13	20	36	1.91
1865485--1865666	33	5.3	33	80	9	193	43	19	23	14	1.87
1865498--1865670	19	9.7	19	70	20	106	43	19	22	14	1.87
1865676--1865755	33	2.4	33	87	0	115	11	18	21	48	1.79
1867210--1867276	21	3.2	21	68	4	55	19	20	35	23	1.95
1867210--1867332	42	2.9	41	79	7	113	22	18	36	21	1.95
1867809--1867866	19	3.4	17	75	24	59	12	17	24	46	1.81
1867824--1867882	14	3.9	14	74	20	55	8	20	22	49	1.75
1867819--1867898	33	2.4	33	93	0	133	10	20	22	47	1.79
1867823--1867898	19	4.6	18	73	23	69	10	19	23	46	1.81
1867985--1868364	94	4.1	94	93	1	629	47	18	12	21	1.82
1870069--1870124	20	2.8	20	81	10	78	39	19	25	16	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1870180--1870247	20	3.4	20	87	0	82	16	17	22	44	1.87
1870809--1871141	20	16.5	20	78	2	360	18	19	24	36	1.94
1870804--1871126	40	8.0	41	86	4	417	19	19	24	36	1.94
1870809--1871141	121	2.7	121	96	0	603	18	19	24	36	1.94
1871154--1871202	20	2.5	20	83	6	64	14	14	24	46	1.81
1871252--1871305	20	2.7	19	69	8	54	16	16	31	35	1.92
1874096--1874135	21	1.9	21	84	0	53	32	15	5	47	1.66
1874537--1874574	2	19.0	2	100	0	76	50	0	0	50	1.00
1875838--1875876	20	2.0	20	90	10	62	33	0	10	56	1.33
1880052--1880086	15	2.3	15	95	0	61	31	34	20	14	1.92
1887042--1887080	19	2.0	20	90	5	62	35	15	2	46	1.60
1887522--1887556	18	1.9	18	100	0	70	25	34	28	11	1.91
1893628--1893679	20	2.6	20	81	0	68	13	26	21	38	1.90
1893671--1893723	22	2.4	22	90	0	88	18	16	26	37	1.93
1894380--1894405	6	4.3	6	100	0	52	0	15	53	30	1.42
1895424--1895452	14	2.0	15	93	6	51	51	0	0	48	1.00
1895986--1896031	24	2.0	24	82	4	58	34	4	23	36	1.75
1900469--1900495	13	2.1	13	100	0	54	29	33	14	22	1.94
1901349--1901422	22	3.4	22	76	10	64	54	1	4	40	1.28
1901432--1901471	20	2.0	20	85	9	55	45	0	5	50	1.23
1904082--1904180	33	3.0	33	87	1	153	24	14	23	38	1.91
1907650--1907748	33	3.0	33	88	7	155	25	15	22	37	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1912168--1912204	20	1.9	19	89	10	58	45	10	24	18	1.81
1912359--1912389	15	2.1	15	93	0	53	54	0	0	45	0.99
1915325--1915383	20	3.1	19	85	9	84	67	8	16	6	1.38
1917093--1917137	2	22.5	2	100	0	90	51	0	0	48	1.00
1925209--1925253	22	2.0	22	86	4	63	17	0	8	73	1.08
1931486--1931534	23	2.1	23	85	7	64	20	14	10	55	1.68
1932450--1932507	29	2.0	30	89	3	91	22	6	5	65	1.37
1934217--1934364	60	2.5	60	79	2	154	47	4	14	33	1.63
1941427--1941472	18	2.5	19	82	10	60	23	10	4	60	1.47
1942560--1942606	17	2.6	18	78	21	53	74	2	0	23	0.93
1949726--1949782	27	2.1	27	84	12	73	43	1	7	47	1.40
1949714--1949767	21	2.6	21	72	0	54	48	0	5	46	1.25
1949782--1949814	17	1.9	17	88	11	50	27	3	6	63	1.32
1950306--1950352	23	2.1	21	84	7	58	34	19	14	31	1.92
1950279--1950526	130	1.9	130	91	0	406	36	12	14	35	1.85
1950922--1950997	35	2.2	35	95	0	134	35	0	23	40	1.55
1961223--1961321	21	4.8	20	72	6	72	36	23	19	21	1.95
1961289--1961521	20	11.6	20	86	4	317	34	27	19	18	1.95
1961890--1961960	33	2.2	33	94	0	124	11	22	18	47	1.80
1961888--1961938	14	3.0	18	70	24	56	9	23	21	45	1.82
1962040--1962116	21	3.7	21	82	6	111	46	18	23	11	1.81
1962158--1962214	14	3.7	14	75	20	60	8	24	22	43	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1962141--1962263	33	3.5	33	88	10	165	11	22	18	47	1.81
1962202--1962262	20	3.0	21	82	4	88	13	21	16	49	1.79
1962198--1962254	21	2.8	20	84	5	78	14	22	17	45	1.84
1964187--1964249	19	3.2	20	78	14	69	46	30	14	9	1.76
1964245--1964384	19	7.6	19	77	8	146	11	20	22	46	1.82
1964266--1964366	33	2.9	35	88	7	134	9	20	22	46	1.80
1964250--1964349	52	1.9	52	89	0	155	10	20	21	49	1.77
1966309--1966344	14	2.6	14	95	0	63	33	0	22	44	1.53
1966451--1966534	19	4.6	19	81	15	115	44	17	23	14	1.86
1966524--1966714	19	10.7	19	76	18	205	14	21	17	45	1.85
1966530--1966714	53	3.5	53	96	1	327	14	21	17	46	1.83
1966548--1966728	33	5.2	33	71	19	145	13	22	18	46	1.83
1966530--1966747	53	4.1	53	89	4	232	13	21	18	45	1.84
1969012--1969036	12	2.1	12	100	0	50	0	28	0	72	0.86
1969211--1969257	24	2.0	24	87	8	69	38	21	14	25	1.92
1969950--1970138	20	9.4	20	87	2	209	18	17	25	38	1.92
1983930--1983982	21	2.5	21	96	0	97	32	18	15	33	1.92
1992964--1993356	85	4.7	85	85	2	501	29	25	20	24	1.99
1992989--1993356	169	2.2	170	89	1	542	29	26	20	24	1.99
1993849--1994431	106	5.5	106	95	0	988	33	25	17	23	1.96
1993849--1994814	212	4.6	212	89	5	1565	33	25	17	23	1.96
1994343--1994519	88	2.0	88	94	0	309	32	24	19	23	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1994431--1994814	106	3.6	106	95	0	687	33	25	17	22	1.96
1994025--1994814	407	1.9	406	96	0	1445	33	25	17	23	1.96
1995448--1995477	15	1.9	16	93	6	53	36	6	0	56	1.26
1998674--1998713	14	2.9	14	81	3	55	57	27	12	2	1.48
2019231--2019271	21	2.0	21	95	0	73	17	24	17	41	1.89
2019287--2019392	20	5.3	20	91	2	178	28	29	18	23	1.98
2020191--2020244	24	2.2	24	93	0	90	20	18	20	40	1.91
2020438--2020472	14	2.6	13	86	8	52	54	22	14	8	1.67
2022675--2022743	20	3.5	20	92	4	113	36	26	21	15	1.94
2022735--2022788	14	3.5	14	73	22	54	44	20	24	11	1.83

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15