genome.fa.s8719.2.7.7.80.10.50.1000.7.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: VEPZ01008719.1 Hibiscus syriacus cultivar Beakdansim tig00111774_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4817204

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  7  of  18  ( 2140 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)
1786819--1786846	5	5.6	5	100	0	56	0	17	0	82	0.68
1787462--1787512	2	26.0	2	94	4	86	50	0	1	47	1.12
1788006--1788132	59	2.1	59	87	7	177	31	19	13	35	1.91
1795067--1795099	14	2.5	13	90	9	57	54	0	0	45	0.99
1795483--1795507	13	1.9	13	100	0	50	24	0	4	72	1.02
1798103--1798236	60	2.2	59	87	6	189	26	19	18	35	1.95
1798103--1798273	60	2.8	59	82	5	173	30	17	16	35	1.92
1798414--1798623	115	1.8	115	97	0	402	36	12	19	32	1.89
1810816--1810855	2	20.0	2	100	0	80	50	0	0	50	1.00
1810949--1811026	12	6.6	12	75	12	72	38	3	1	56	1.26
1810975--1811013	2	21.0	2	85	15	57	46	0	0	53	1.00
1810950--1811015	28	2.4	29	82	14	86	40	3	1	54	1.25
1811608--1811678	28	2.5	28	81	4	72	32	18	12	36	1.88
1811674--1811786	54	2.1	54	85	1	147	30	15	15	38	1.89
1811820--1811895	28	2.7	28	79	4	82	30	18	17	34	1.94
1812809--1812859	12	4.3	12	76	18	54	33	0	0	66	0.92
1812811--1812859	17	2.8	18	84	9	66	34	0	0	65	0.93
1812847--1812919	26	2.9	27	78	13	84	46	0	1	52	1.09
1812817--1812923	12	8.7	12	71	18	69	41	0	0	57	1.05
1812816--1812977	64	2.5	65	88	4	236	43	0	1	55	1.07
1812819--1813022	64	3.3	61	81	12	172	43	0	0	55	1.10
1812972--1813033	19	3.3	19	78	15	58	37	1	0	61	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1813497--1813556	31	1.9	31	93	0	102	43	10	6	40	1.64
1813574--1813616	16	2.7	16	100	0	86	23	6	6	62	1.45
1815069--1815429	4	90.8	4	67	15	110	29	5	19	45	1.72
1815436--1815500	4	16.8	4	88	6	53	41	21	6	30	1.77
1815433--1815481	12	4.2	12	84	5	64	38	24	10	26	1.87
1815456--1815540	19	4.6	19	72	16	70	40	20	5	34	1.76
1815494--1815551	15	4.0	15	76	14	59	34	20	8	36	1.84
1815620--1816611	285	3.5	281	81	6	986	34	13	6	46	1.68
1817312--1817493	91	2.0	91	89	4	278	21	19	19	39	1.93
1824544--1824618	33	2.4	31	80	10	82	20	25	8	46	1.77
1825602--1825789	32	6.2	28	71	17	69	72	2	7	17	1.20
1825623--1825743	20	5.9	21	69	18	76	70	2	11	15	1.27
1825655--1825734	32	2.7	27	81	14	79	70	1	11	17	1.23
1825684--1825756	20	3.5	20	75	14	60	72	2	6	17	1.19
1825705--1825781	5	15.0	5	74	17	61	74	1	3	20	1.06
1825740--1825781	6	7.3	6	89	5	52	78	0	0	21	0.75
1825738--1825781	11	3.9	11	82	14	54	77	0	0	22	0.77
1825715--1825781	34	2.0	34	85	11	93	76	1	1	20	0.95
1825799--1825845	23	2.0	24	88	12	71	72	4	2	21	1.12
1825909--1825954	21	2.3	19	82	10	56	71	0	4	23	1.03
1827236--1827293	17	3.1	17	75	18	53	46	0	0	53	1.00
1827249--1827284	13	3.0	12	88	11	56	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1828742--1828798	28	2.0	28	93	0	96	22	1	17	57	1.49
1831852--1831958	20	5.3	20	88	0	151	28	27	21	23	1.99
1832568--1832661	20	4.8	20	81	3	102	14	13	21	50	1.78
1834388--1834455	18	3.8	18	96	0	118	30	19	7	42	1.78
1834605--1834649	20	2.2	20	92	0	72	35	26	20	17	1.95
1834692--1834747	20	2.8	19	86	5	76	21	17	23	37	1.94
1834692--1834758	20	3.5	19	82	11	75	19	17	25	37	1.94
1835248--1835352	21	5.0	21	74	3	95	20	37	19	22	1.95
1835245--1835355	42	2.6	42	78	5	118	20	37	18	22	1.94
1836918--1836971	20	2.7	20	85	0	72	44	25	18	11	1.83
1837014--1837278	20	13.9	20	77	10	259	26	18	22	33	1.96
1836974--1837186	94	2.3	94	88	1	302	26	19	20	33	1.97
1837034--1837172	74	1.9	74	84	3	190	26	18	22	32	1.97
1837014--1837278	114	2.3	114	84	5	338	26	18	22	33	1.96
1837249--1837518	140	1.9	140	96	0	504	42	15	13	28	1.85
1837578--1837612	18	1.9	18	88	0	52	17	5	25	51	1.67
1839597--1839623	14	1.9	14	100	0	54	7	18	29	44	1.77
1839598--1839630	14	2.5	13	90	9	50	6	21	24	48	1.72
1840684--1840872	20	9.3	20	81	7	159	29	20	23	26	1.98
1840806--1840861	21	2.6	22	74	5	69	39	17	25	17	1.92
1840799--1840881	41	2.0	42	83	4	105	33	19	25	21	1.97
1844372--1844409	20	1.9	20	88	0	58	55	15	15	13	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1851517--1851561	13	3.4	13	81	3	54	71	13	0	15	1.15
1854244--1854326	28	3.0	27	84	8	98	51	0	0	48	1.00
1854249--1854392	6	24.3	6	69	23	76	50	1	0	47	1.14
1854249--1854358	34	3.3	36	71	25	66	50	0	0	49	1.07
1854248--1854532	31	9.3	30	72	20	157	50	2	2	44	1.29
1854354--1854400	24	1.9	25	82	4	60	55	6	0	38	1.26
1854412--1854502	43	2.2	40	86	7	119	47	3	5	43	1.42
1854432--1854524	29	3.0	29	70	19	78	49	2	5	43	1.37
1854403--1854524	65	1.9	64	86	5	174	49	2	4	43	1.37
1854390--1854595	21	9.5	21	67	18	84	49	4	5	41	1.45
1854626--1854775	57	2.6	56	82	9	187	41	8	8	41	1.67
1854648--1854701	24	2.3	23	84	6	65	46	5	7	40	1.55
1854679--1854719	15	2.6	16	88	7	66	41	4	7	46	1.53
1854638--1854699	22	2.9	21	77	13	63	45	6	8	40	1.59
1854635--1854737	20	5.2	21	69	25	82	42	8	6	41	1.62
1854721--1854792	35	2.1	35	86	0	99	38	8	9	43	1.68
1854888--1855223	79	4.1	81	71	17	241	46	4	2	46	1.37
1855131--1855171	17	2.4	17	91	0	73	58	0	4	36	1.20
1854888--1855230	2	168.0	2	71	15	204	46	4	2	46	1.37
1855271--1855330	20	2.9	20	76	14	68	40	10	10	40	1.72
1855271--1855351	42	2.0	40	87	4	117	40	8	9	40	1.69
1855334--1855385	11	5.1	10	75	11	52	36	1	9	51	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1855325--1855364	21	2.0	21	85	5	55	42	2	10	45	1.51
1855465--1855840	2	193.5	2	64	21	124	47	4	2	45	1.36
1855525--1855840	9	31.7	10	65	23	77	47	4	2	46	1.34
1855653--1855839	7	27.0	7	69	19	67	45	3	2	47	1.34
1855669--1855709	11	3.6	11	86	3	55	51	4	0	43	1.23
1855917--1856608	209	3.3	214	89	4	1098	29	10	8	51	1.66
1859209--1859246	3	12.7	3	83	10	51	65	0	34	0	0.93
1860167--1860870	174	4.0	176	84	5	915	36	21	18	23	1.95
1863968--1864010	17	2.5	17	73	0	50	44	0	0	55	0.99
1865033--1865456	213	2.0	213	98	0	821	31	13	16	38	1.88
1874412--1874440	13	2.2	13	100	0	58	34	17	0	48	1.47
1875915--1875981	35	1.9	35	84	6	91	46	5	1	46	1.36
1875976--1876608	318	2.0	315	95	0	1131	39	17	10	31	1.84
1882378--1882639	131	2.0	132	89	0	400	23	28	11	36	1.90
1886675--1886711	15	2.4	16	90	4	58	70	5	10	13	1.32
1891177--1891213	15	2.4	16	90	4	58	70	5	10	13	1.32
1895479--1895521	10	4.4	10	94	5	79	0	0	18	81	0.69
1895479--1895521	19	2.2	20	95	4	79	0	0	18	81	0.69
1898218--1898284	34	2.0	34	87	0	98	20	26	19	32	1.97
1912021--1912060	21	1.9	21	90	10	64	52	0	0	47	1.00
1912446--1912598	69	2.2	70	82	1	191	43	11	11	33	1.77
1914699--1914742	18	2.5	18	81	3	54	45	6	15	31	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1915122--1915692	262	2.2	263	86	5	810	40	19	12	28	1.87
1916993--1917034	21	2.0	22	95	4	77	28	23	11	35	1.91
1919160--1919207	20	2.5	20	86	3	62	54	8	10	27	1.63
1920317--1920374	21	3.1	18	81	18	73	32	12	5	50	1.62
1920334--1920380	21	2.2	22	92	3	78	34	12	4	48	1.61
1925907--1925960	23	2.4	22	87	9	81	20	35	20	24	1.96
1925922--1925980	23	2.6	22	86	7	75	22	33	25	18	1.96
1928616--1928675	19	3.1	19	95	4	111	26	38	25	10	1.87
1928616--1928674	20	3.0	20	97	2	111	25	38	25	10	1.87
1938695--1938864	90	1.9	88	95	2	304	38	11	6	44	1.66

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18